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sema3fa sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Fa [ Danio rerio (zebrafish) ]

Gene ID: 544658, updated on 1-Aug-2018

Summary

Official Symbol
sema3faprovided by ZNC
Official Full Name
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Faprovided by ZNC
Primary source
ZFIN:ZDB-GENE-050513-1
See related
Ensembl:ENSDARG00000011163 Vega:OTTDARG00000019908
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Danio
Also known as
wu:fb92d12

Genomic context

See sema3fa in Genome Data Viewer
Location:
chromosome: 6
Exon count:
19
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (42819009..42915774)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (42821503..42918075)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene si:ch211-241d24.1 Neighboring gene RNA-binding protein 6 Neighboring gene guanine nucleotide binding protein (G protein), alpha transducing activity polypeptide 1 Neighboring gene ER degradation enhancer, mannosidase alpha-like 1

Genomic regions, transcripts, and products

General gene information

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neuropilin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of axon extension involved in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neural crest cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neural crest cell migration IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Fa
Names
extracellular signal molecule
sema3f1
semaphorin 3fa

NCBI Reference Sequences (RefSeq)

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_001014822.1NP_001014822.1  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Fa precursor

    See identical proteins and their annotated locations for NP_001014822.1

    Status: PROVISIONAL

    Source sequence(s)
    AY766118
    UniProtKB/TrEMBL
    Q5ID24
    Related
    ENSDARP00000149811.1, ENSDART00000185413.1
    Conserved Domains (4) summary
    cd05871
    Location:614704
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11254
    Location:54553
    Sema_3F; The Sema domain, a protein interacting module, of semaphorin 3F (Sema3F)
    smart00410
    Location:618693
    IG_like; Immunoglobulin like
    smart00423
    Location:552589
    PSI; domain found in Plexins, Semaphorins and Integrins

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    42819009..42915774
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005166039.3XP_005166096.1  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Fa isoform X1

    UniProtKB/TrEMBL
    F1QPG9
    Related
    ENSDARP00000046497.6, OTTDARP00000020340, ENSDART00000046498.7
    Conserved Domains (4) summary
    cd05871
    Location:619709
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11254
    Location:59558
    Sema_3F; The Sema domain, a protein interacting module, of semaphorin 3F (Sema3F)
    smart00410
    Location:623698
    IG_like; Immunoglobulin like
    smart00423
    Location:557594
    PSI; domain found in Plexins, Semaphorins and Integrins
  2. XM_005166040.3XP_005166097.1  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Fa isoform X2

    Related
    ENSDARP00000154208.1, ENSDART00000184833.1
    Conserved Domains (4) summary
    cd05871
    Location:589679
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11254
    Location:59528
    Sema_3F; The Sema domain, a protein interacting module, of semaphorin 3F (Sema3F)
    smart00410
    Location:593668
    IG_like; Immunoglobulin like
    smart00423
    Location:527564
    PSI; domain found in Plexins, Semaphorins and Integrins
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