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VSIG1 V-set and immunoglobulin domain containing 1 [ Homo sapiens (human) ]

Gene ID: 340547, updated on 23-Nov-2021

Summary

Official Symbol
VSIG1provided by HGNC
Official Full Name
V-set and immunoglobulin domain containing 1provided by HGNC
Primary source
HGNC:HGNC:28675
See related
Ensembl:ENSG00000101842 MIM:300620
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
GPA34; dJ889N15.1; 1700062D20Rik
Summary
This gene encodes a member of the junctional adhesion molecule (JAM) family. The encoded protein contains multiple glycosylation sites at the N-terminal region, and multiple phosphorylation sites and glutamic acid/proline (EP) repeats at the C-terminal region. The gene is expressed in normal stomach and testis, as well as in gastric, esophageal and ovarian cancers. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2009]
Expression
Biased expression in stomach (RPKM 88.2), testis (RPKM 34.6) and 1 other tissue See more
Orthologs
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Genomic context

See VSIG1 in Genome Data Viewer
Location:
Xq22.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (108018886..108079184)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (107288295..107322414)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene TMEM230 pseudogene 1 Neighboring gene NACHT, LRR and PYD domains-containing protein 10-like Neighboring gene NLR family pyrin domain containing 3 pseudogene 1 Neighboring gene testis expressed 13B Neighboring gene proteasome 26S subunit, non-ATPase 10 Neighboring gene autophagy related 4A cysteine peptidase

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC44287

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 epithelial cell morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in maintenance of gastrointestinal epithelium IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
is_active_in basolateral plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
V-set and immunoglobulin domain-containing protein 1
Names
cell surface A33 antigen
glycoprotein A34

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.

Genomic

  1. NG_016264.1 RefSeqGene

    Range
    5096..39215
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001170553.2NP_001164024.1  V-set and immunoglobulin domain-containing protein 1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001164024.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AK301311, AL031177, BX648658
    Consensus CDS
    CCDS55474.1
    UniProtKB/Swiss-Prot
    Q86XK7
    Related
    ENSP00000402219.3, ENST00000415430.7
    Conserved Domains (3) summary
    cd00096
    Location:193260
    Ig; Immunoglobulin domain
    smart00410
    Location:190263
    IG_like; Immunoglobulin like
    cl11960
    Location:28163
    Ig; Immunoglobulin domain
  2. NM_182607.5NP_872413.1  V-set and immunoglobulin domain-containing protein 1 isoform 2 precursor

    See identical proteins and their annotated locations for NP_872413.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame coding exon, as compared to variant 1. The resulting isoform (2) lacks an internal segment, as compared to isoform 1.
    Source sequence(s)
    AL031177, BX648658
    Consensus CDS
    CCDS14535.1
    UniProtKB/Swiss-Prot
    Q86XK7
    Related
    ENSP00000217957.3, ENST00000217957.10
    Conserved Domains (3) summary
    pfam13927
    Location:142215
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31127
    Ig; Immunoglobulin domain
    cl25865
    Location:275342
    Trypan_PARP; Procyclic acidic repetitive protein (PARP)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    108018886..108079184
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011530936.2XP_011529238.1  V-set and immunoglobulin domain-containing protein 1 isoform X1

    Conserved Domains (3) summary
    cd00096
    Location:212279
    Ig; Immunoglobulin domain
    smart00410
    Location:209282
    IG_like; Immunoglobulin like
    cl11960
    Location:90182
    Ig; Immunoglobulin domain
  2. XM_005262127.4XP_005262184.1  V-set and immunoglobulin domain-containing protein 1 isoform X2

    Conserved Domains (3) summary
    cd00096
    Location:219286
    Ig; Immunoglobulin domain
    smart00410
    Location:216289
    IG_like; Immunoglobulin like
    cl11960
    Location:97189
    Ig; Immunoglobulin domain
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