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PLXDC1 plexin domain containing 1 [ Homo sapiens (human) ]

Gene ID: 57125, updated on 10-Dec-2024

Summary

Official Symbol
PLXDC1provided by HGNC
Official Full Name
plexin domain containing 1provided by HGNC
Primary source
HGNC:HGNC:20945
See related
Ensembl:ENSG00000161381 MIM:606826; AllianceGenome:HGNC:20945
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
TEM3; TEM7
Summary
Predicted to be involved in spinal cord development. Part of receptor complex. [provided by Alliance of Genome Resources, Dec 2024]
Expression
Ubiquitous expression in gall bladder (RPKM 7.4), endometrium (RPKM 6.4) and 23 other tissues See more
Orthologs
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Genomic context

See PLXDC1 in Genome Data Viewer
Location:
17q12
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (39063313..39152967, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (39927167..40015495, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (37219566..37307890, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371767 Neighboring gene long intergenic non-protein coding RNA 2079 Neighboring gene leucine rich repeat containing 37 member A11, pseudogene Neighboring gene MED14-independent group 3 enhancer GRCh37_chr17:37202329-37203528 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8447 Neighboring gene RDM1 pseudogene 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:37228227-37229015 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12086 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12087 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:37239721-37240221 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:37243560-37244060 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12088 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:37255200-37255801 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:37265163-37265351 Neighboring gene uncharacterized LOC124903995 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12089 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12090 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:37309916-37310422 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:37310423-37310927 Neighboring gene tRNA-Cys (anticodon GCA) 2-3 Neighboring gene tRNA-Cys (anticodon GCA) 2-4

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ36270, FLJ45632, DKFZp686F0937

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in angiogenesis NAS
Non-traceable Author Statement
more info
PubMed 
involved_in spinal cord development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in bicellular tight junction IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in dendrite IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular space NAS
Non-traceable Author Statement
more info
PubMed 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane NAS
Non-traceable Author Statement
more info
PubMed 
part_of receptor complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
plexin domain-containing protein 1
Names
2410003I07Rik
tumor endothelial marker 3
tumor endothelial marker 7

NCBI Reference Sequences (RefSeq)

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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_020405.5NP_065138.2  plexin domain-containing protein 1 precursor

    See identical proteins and their annotated locations for NP_065138.2

    Status: VALIDATED

    Source sequence(s)
    AC091178, AF378753, AK312999, BC036059, DA205327
    Consensus CDS
    CCDS11333.1
    UniProtKB/Swiss-Prot
    B2R7I8, Q5QCZ7, Q5QCZ8, Q5QCZ9, Q8IUK5, Q9HCT9
    UniProtKB/TrEMBL
    B4E173
    Related
    ENSP00000323927.4, ENST00000315392.9
    Conserved Domains (3) summary
    pfam01437
    Location:303347
    PSI; Plexin repeat
    pfam05283
    Location:303441
    MGC-24; Multi-glycosylated core protein 24 (MGC-24), sialomucin
    cl02648
    Location:152242
    NIDO; Nidogen-like

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    39063313..39152967 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047436434.1XP_047292390.1  plexin domain-containing protein 1 isoform X15

    UniProtKB/TrEMBL
    B4E173
  2. XM_047436432.1XP_047292388.1  plexin domain-containing protein 1 isoform X14

    UniProtKB/TrEMBL
    B4E173
  3. XM_047436435.1XP_047292391.1  plexin domain-containing protein 1 isoform X15

    UniProtKB/TrEMBL
    B4E173
    Related
    ENSP00000409687.2, ENST00000444911.6
  4. XM_047436428.1XP_047292384.1  plexin domain-containing protein 1 isoform X5

    UniProtKB/TrEMBL
    B4E173
  5. XM_047436427.1XP_047292383.1  plexin domain-containing protein 1 isoform X4

    UniProtKB/TrEMBL
    B4E173
  6. XM_047436426.1XP_047292382.1  plexin domain-containing protein 1 isoform X3

    UniProtKB/TrEMBL
    B4E173
  7. XM_047436425.1XP_047292381.1  plexin domain-containing protein 1 isoform X2

    UniProtKB/TrEMBL
    B4E173
  8. XM_047436424.1XP_047292380.1  plexin domain-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    B4E173
  9. XM_047436429.1XP_047292385.1  plexin domain-containing protein 1 isoform X6

  10. XM_047436431.1XP_047292387.1  plexin domain-containing protein 1 isoform X8

    UniProtKB/TrEMBL
    B4E173
  11. XM_047436433.1XP_047292389.1  plexin domain-containing protein 1 isoform X9

    UniProtKB/TrEMBL
    B4E173
  12. XM_047436436.1XP_047292392.1  plexin domain-containing protein 1 isoform X10

  13. XM_047436430.1XP_047292386.1  plexin domain-containing protein 1 isoform X7

  14. XM_047436437.1XP_047292393.1  plexin domain-containing protein 1 isoform X11

    UniProtKB/TrEMBL
    A0A172Q3A1
  15. XM_047436438.1XP_047292394.1  plexin domain-containing protein 1 isoform X12

  16. XM_047436439.1XP_047292395.1  plexin domain-containing protein 1 isoform X13

    Related
    ENSP00000462089.1, ENST00000578390.5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    39927167..40015495 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054316715.1XP_054172690.1  plexin domain-containing protein 1 isoform X5

    UniProtKB/TrEMBL
    B4E173
  2. XM_054316714.1XP_054172689.1  plexin domain-containing protein 1 isoform X4

    UniProtKB/TrEMBL
    B4E173
  3. XM_054316713.1XP_054172688.1  plexin domain-containing protein 1 isoform X3

    UniProtKB/TrEMBL
    B4E173
  4. XM_054316712.1XP_054172687.1  plexin domain-containing protein 1 isoform X2

    UniProtKB/TrEMBL
    B4E173
  5. XM_054316711.1XP_054172686.1  plexin domain-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    B4E173
  6. XM_054316716.1XP_054172691.1  plexin domain-containing protein 1 isoform X6

  7. XM_054316718.1XP_054172693.1  plexin domain-containing protein 1 isoform X8

    UniProtKB/TrEMBL
    B4E173
  8. XM_054316719.1XP_054172694.1  plexin domain-containing protein 1 isoform X9

    UniProtKB/TrEMBL
    B4E173
  9. XM_054316720.1XP_054172695.1  plexin domain-containing protein 1 isoform X10

  10. XM_054316717.1XP_054172692.1  plexin domain-containing protein 1 isoform X7

  11. XM_054316721.1XP_054172696.1  plexin domain-containing protein 1 isoform X11

    UniProtKB/TrEMBL
    A0A172Q3A1
  12. XM_054316722.1XP_054172697.1  plexin domain-containing protein 1 isoform X12

  13. XM_054316723.1XP_054172698.1  plexin domain-containing protein 1 isoform X13