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    SEMA4D semaphorin 4D [ Homo sapiens (human) ]

    Gene ID: 10507, updated on 8-Jul-2024

    Summary

    Official Symbol
    SEMA4Dprovided by HGNC
    Official Full Name
    semaphorin 4Dprovided by HGNC
    Primary source
    HGNC:HGNC:10732
    See related
    Ensembl:ENSG00000187764 MIM:601866; AllianceGenome:HGNC:10732
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    A8; GR3; BB18; CD100; COLL4; SEMAJ; coll-4; C9orf164; M-sema-G
    Summary
    Enables identical protein binding activity; semaphorin receptor binding activity; and transmembrane signaling receptor activity. Involved in several processes, including positive regulation of phosphatidylinositol 3-kinase signaling; regulation of neuron projection development; and regulation of phosphate metabolic process. Is integral component of plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in lymph node (RPKM 12.0), appendix (RPKM 8.6) and 22 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See SEMA4D in Genome Data Viewer
    Location:
    9q22.2
    Exon count:
    34
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (89360787..89498113, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (101524564..101662071, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (91975702..92113028, complement)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376136 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:91896966-91897484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20005 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20006 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28527 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28528 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28529 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20007 Neighboring gene microRNA 3153 Neighboring gene SECIS binding protein 2 Neighboring gene CDC28 protein kinase regulatory subunit 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91978812-91979312 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91979313-91979813 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28530 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20008 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28531 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108523 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108535 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92020317-92021138 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92021139-92021959 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28535 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92026366-92026868 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92026869-92027370 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:92027622-92028122 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:92028123-92028623 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28536 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28537 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92040313-92041172 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28539 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28540 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28542 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28541 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28543 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:92046837-92047618 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92049183-92049964 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92049965-92050746 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92050747-92051528 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92051529-92052310 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92054729-92055306 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92057617-92058192 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108605 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92061728-92062338 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92064045-92064893 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20009 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28545 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92080560-92081256 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92081257-92081952 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92082322-92083285 Neighboring gene proliferation-associated 2G4 pseudogene 6 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28546 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92086209-92086710 Neighboring gene ubiquitin-conjugating enzyme E2 variant 1-like Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92095373-92095872 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92096528-92097028 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20010 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20011 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28547 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20012 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20013 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20014 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28548 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28549 Neighboring gene uncharacterized LOC105376137 Neighboring gene Neanderthal introgressed variant-containing enhancers experimental_108656 and experimental_108657 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108660 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108664 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108676 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108670 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28550 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28551 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28552 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20015 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28553 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108683 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92167973-92168574 Neighboring gene uncharacterized LOC124902207 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28554

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide meta-analyses of nonsyndromic cleft lip with or without cleft palate identify six new risk loci.
    EBI GWAS Catalog

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SEMA4D PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env HIV-1 gp120 upregulates the expression of semaphoring-4D (SEMA4D) in human B cells PubMed
    Nef nef Both HIV-1 Nef and Vpu downregulate the cell surface expression of CD100 PubMed
    Tat tat Microarray analysis indicates HIV-1 Tat upregulates the expression of many proteins, including Semaphorin (CD100), in immature dendritic cells, an effect that likely facilitates the expansion of HIV-1 infection PubMed
    Vpu vpu Both HIV-1 Nef and Vpu downregulate the cell surface expression of CD100 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ33485, FLJ34282, FLJ39737, FLJ46484, MGC169138, MGC169141

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables chemorepellent activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables receptor ligand activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables semaphorin receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables semaphorin receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables semaphorin receptor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables signaling receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables signaling receptor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables transmembrane signaling receptor activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in bone trabecula morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cell adhesion TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in immune response TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in leukocyte aggregation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of apoptotic process TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of cell adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of osteoblast differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of peptidyl-tyrosine phosphorylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in neural crest cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in ossification involved in bone maturation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in ossification involved in bone maturation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of GTPase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of Rho protein signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of collateral sprouting IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of inhibitory synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of peptidyl-tyrosine phosphorylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of protein phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of cell projection organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of cell shape IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of dendrite morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in semaphorin-plexin signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in semaphorin-plexin signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in semaphorin-plexin signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in semaphorin-plexin signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular space ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    part_of semaphorin receptor complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    semaphorin-4D
    Names
    sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D
    sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, 4D

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001142287.2NP_001135759.1  semaphorin-4D isoform 2 precursor

      See identical proteins and their annotated locations for NP_001135759.1

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS47991.1
      Related
      ENSP00000391733.1, ENST00000420987.5
      Conserved Domains (4) summary
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      pfam01437
      Location:503554
      PSI; Plexin repeat
      cd00096
      Location:604612
      Ig; Ig strand A [structural motif]
      cl11960
      Location:603690
      Ig; Immunoglobulin domain
    2. NM_001371194.2NP_001358123.1  semaphorin-4D isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS6685.1
      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Related
      ENSP00000388768.2, ENST00000422704.7
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    3. NM_001371195.1NP_001358124.1  semaphorin-4D isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS6685.1
      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    4. NM_001371196.1NP_001358125.1  semaphorin-4D isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS6685.1
      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    5. NM_001371197.1NP_001358126.1  semaphorin-4D isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS6685.1
      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    6. NM_001371198.1NP_001358127.1  semaphorin-4D isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS47991.1
      Conserved Domains (4) summary
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      pfam01437
      Location:503554
      PSI; Plexin repeat
      cd00096
      Location:604612
      Ig; Ig strand A [structural motif]
      cl11960
      Location:603690
      Ig; Immunoglobulin domain
    7. NM_001371199.1NP_001358128.1  semaphorin-4D isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS47991.1
      Conserved Domains (4) summary
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      pfam01437
      Location:503554
      PSI; Plexin repeat
      cd00096
      Location:604612
      Ig; Ig strand A [structural motif]
      cl11960
      Location:603690
      Ig; Immunoglobulin domain
    8. NM_001371200.1NP_001358129.1  semaphorin-4D isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS47991.1
      Conserved Domains (4) summary
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      pfam01437
      Location:503554
      PSI; Plexin repeat
      cd00096
      Location:604612
      Ig; Ig strand A [structural motif]
      cl11960
      Location:603690
      Ig; Immunoglobulin domain
    9. NM_001371201.1NP_001358130.1  semaphorin-4D isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS47991.1
      Conserved Domains (4) summary
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      pfam01437
      Location:503554
      PSI; Plexin repeat
      cd00096
      Location:604612
      Ig; Ig strand A [structural motif]
      cl11960
      Location:603690
      Ig; Immunoglobulin domain
    10. NM_001371202.1NP_001358131.1  semaphorin-4D isoform 3 precursor

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Conserved Domains (2) summary
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    11. NM_006378.4NP_006369.3  semaphorin-4D isoform 1 precursor

      See identical proteins and their annotated locations for NP_006369.3

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
      Consensus CDS
      CCDS6685.1
      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Related
      ENSP00000405102.2, ENST00000438547.6
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins

    RNA

    1. NR_163884.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
    2. NR_163885.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
    3. NR_163886.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
    4. NR_163887.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
    5. NR_163888.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575
    6. NR_163889.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL590233, AL929575

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      89360787..89498113 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047422627.1XP_047278583.1  semaphorin-4D isoform X3

      Related
      ENSP00000411981.2, ENST00000455551.6
    2. XM_047422624.1XP_047278580.1  semaphorin-4D isoform X3

    3. XM_047422620.1XP_047278576.1  semaphorin-4D isoform X2

    4. XM_047422623.1XP_047278579.1  semaphorin-4D isoform X2

    5. XM_047422628.1XP_047278584.1  semaphorin-4D isoform X3

    6. XM_047422622.1XP_047278578.1  semaphorin-4D isoform X2

    7. XM_047422626.1XP_047278582.1  semaphorin-4D isoform X3

      Related
      ENSP00000344923.4, ENST00000339861.8
    8. XM_047422621.1XP_047278577.1  semaphorin-4D isoform X2

    9. XM_047422625.1XP_047278581.1  semaphorin-4D isoform X3

    10. XM_047422629.1XP_047278585.1  semaphorin-4D isoform X4

      UniProtKB/TrEMBL
      B7Z9Z2, E9PFD9
      Related
      ENSP00000446394.1, ENST00000537934.5
    11. XM_047422607.1XP_047278563.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    12. XM_011518125.2XP_011516427.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516427.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Related
      ENSP00000348822.2, ENST00000356444.6
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    13. XM_011518133.3XP_011516435.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516435.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    14. XM_011518128.3XP_011516430.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516430.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    15. XM_011518127.3XP_011516429.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516429.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    16. XM_047422614.1XP_047278570.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    17. XM_047422606.1XP_047278562.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    18. XM_011518123.3XP_011516425.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516425.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    19. XM_047422619.1XP_047278575.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    20. XM_011518129.2XP_011516431.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516431.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    21. XM_017014198.2XP_016869687.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    22. XM_047422617.1XP_047278573.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    23. XM_047422609.1XP_047278565.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    24. XM_017014195.2XP_016869684.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    25. XM_017014194.2XP_016869683.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    26. XM_011518124.3XP_011516426.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516426.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    27. XM_017014193.3XP_016869682.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    28. XM_047422613.1XP_047278569.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    29. XM_047422612.1XP_047278568.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    30. XM_047422610.1XP_047278566.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    31. XM_047422615.1XP_047278571.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    32. XM_011518131.3XP_011516433.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516433.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    33. XM_011518130.3XP_011516432.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516432.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Related
      ENSP00000416523.1, ENST00000450295.5
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    34. XM_047422611.1XP_047278567.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    35. XM_047422618.1XP_047278574.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    36. XM_011518134.3XP_011516436.1  semaphorin-4D isoform X1

      See identical proteins and their annotated locations for XP_011516436.1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
      Conserved Domains (3) summary
      cd05873
      Location:559645
      Ig_Sema4D_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4D
      cd11259
      Location:31501
      Sema_4D; The Sema domain, a protein interacting module, of semaphorin 4D (Sema4D, also known as CD100)
      smart00423
      Location:503554
      PSI; domain found in Plexins, Semaphorins and Integrins
    37. XM_047422632.1XP_047278588.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    38. XM_047422631.1XP_047278587.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    39. XM_047422630.1XP_047278586.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    40. XM_047422634.1XP_047278590.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    41. XM_047422633.1XP_047278589.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      101524564..101662071 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054361747.1XP_054217722.1  semaphorin-4D isoform X3

    2. XM_054361744.1XP_054217719.1  semaphorin-4D isoform X3

    3. XM_054361740.1XP_054217715.1  semaphorin-4D isoform X2

    4. XM_054361743.1XP_054217718.1  semaphorin-4D isoform X2

    5. XM_054361742.1XP_054217717.1  semaphorin-4D isoform X2

    6. XM_054361741.1XP_054217716.1  semaphorin-4D isoform X2

    7. XM_054361748.1XP_054217723.1  semaphorin-4D isoform X3

    8. XM_054361746.1XP_054217721.1  semaphorin-4D isoform X3

    9. XM_054361745.1XP_054217720.1  semaphorin-4D isoform X3

    10. XM_054361749.1XP_054217724.1  semaphorin-4D isoform X4

      UniProtKB/TrEMBL
      B7Z9Z2, E9PFD9
    11. XM_054361717.1XP_054217692.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    12. XM_054361724.1XP_054217699.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    13. XM_054361718.1XP_054217693.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    14. XM_054361730.1XP_054217705.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    15. XM_054361721.1XP_054217696.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    16. XM_054361728.1XP_054217703.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    17. XM_054361716.1XP_054217691.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    18. XM_054361719.1XP_054217694.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    19. XM_054361739.1XP_054217714.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    20. XM_054361738.1XP_054217713.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    21. XM_054361735.1XP_054217710.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    22. XM_054361731.1XP_054217706.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    23. XM_054361725.1XP_054217700.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    24. XM_054361737.1XP_054217712.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    25. XM_054361729.1XP_054217704.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    26. XM_054361723.1XP_054217698.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    27. XM_054361726.1XP_054217701.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    28. XM_054361722.1XP_054217697.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    29. XM_054361727.1XP_054217702.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    30. XM_054361736.1XP_054217711.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    31. XM_054361732.1XP_054217707.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    32. XM_054361733.1XP_054217708.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    33. XM_054361734.1XP_054217709.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    34. XM_054361720.1XP_054217695.1  semaphorin-4D isoform X1

      UniProtKB/Swiss-Prot
      B2RPM6, Q7Z5S4, Q8N8B0, Q92854
      UniProtKB/TrEMBL
      Q4LE41
    35. XM_054361752.1XP_054217727.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    36. XM_054361753.1XP_054217728.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    37. XM_054361750.1XP_054217725.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    38. XM_054361754.1XP_054217729.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0
    39. XM_054361751.1XP_054217726.1  semaphorin-4D isoform X5

      UniProtKB/TrEMBL
      B4DER0

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_182635.1: Suppressed sequence

      Description
      NM_182635.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.