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PTCRA pre T cell antigen receptor alpha [ Homo sapiens (human) ]

Gene ID: 171558, updated on 13-Mar-2020

Summary

Official Symbol
PTCRAprovided by HGNC
Official Full Name
pre T cell antigen receptor alphaprovided by HGNC
Primary source
HGNC:HGNC:21290
See related
Ensembl:ENSG00000171611 MIM:606817
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
PTA; PT-ALPHA
Summary
The protein encoded by this gene is a single-pass type I membrane protein that is found in immmature but not mature T-cells. Along with TCRB and CD3 complex, the encoded protein forms the pre-T-cell receptor complex, which regulates early T-cell development. Four transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jul 2011]
Expression
Biased expression in spleen (RPKM 1.2), lymph node (RPKM 0.8) and 5 other tissues See more
Orthologs

Genomic context

See PTCRA in Genome Data Viewer
Location:
6p21.1
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (42915597..42925838)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (42883545..42893583)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene chromosome 6 open reading frame 226 Neighboring gene uncharacterized LOC105375063 Neighboring gene CNPY3-GNMT readthrough Neighboring gene canopy FGF signaling regulator 3 Neighboring gene RPL24 pseudogene 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?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study of plasma N6 polyunsaturated fatty acids within the cohorts for heart and aging research in genomic epidemiology consortium.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 envelope glycoproteins gp120 and gp160 directly and specifically impair the CD3/TcR-mediated activation of phospholipase C (PLC) via the CD4 molecule in uninfected T cells 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

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
negative regulation of thymocyte apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
pre T-cell antigen receptor alpha
Names
pT-alpha-TCR
pre-T-cell receptor alpha chain

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.

Genomic

  1. NG_029636.1 RefSeqGene

    Range
    5001..14850
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001243168.1NP_001230097.1  pre T-cell antigen receptor alpha isoform 1 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK130819, AW014894, BC153829, U36759
    Consensus CDS
    CCDS75457.1
    UniProtKB/Swiss-Prot
    Q6ISU1
    UniProtKB/TrEMBL
    A0A087WTE9, Q6ZNR1
    Related
    ENSP00000477815.1, ENST00000616441.2
    Conserved Domains (1) summary
    pfam15028
    Location:20142
    PTCRA; Pre-T-cell antigen receptor
  2. NM_001243169.1NP_001230098.1  pre T-cell antigen receptor alpha isoform 3 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses alternate in-frame splice junctions at the 5' ends of two exons and contains an alternate in-frame exon compared to variant 1. The resulting isoform (3) contains an alternate internal segment but lacks two others compared to isoform 1.
    Source sequence(s)
    AF165312, AW014894, BC153829, U36759
    Consensus CDS
    CCDS59019.1
    UniProtKB/Swiss-Prot
    Q6ISU1
    Related
    ENSP00000409550.1, ENST00000441198.4
    Conserved Domains (1) summary
    cl11960
    Location:34121
    Ig; Immunoglobulin domain
  3. NM_001243170.1NP_001230099.1  pre T-cell antigen receptor alpha isoform 4 precursor

    See identical proteins and their annotated locations for NP_001230099.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an alternate in-frame exon and uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (4) lacks two internal segments compared to isoform 1.
    Source sequence(s)
    AF101436, AW014894, BC153829, U36759
    Consensus CDS
    CCDS59020.1
    UniProtKB/Swiss-Prot
    Q6ISU1
    Related
    ENSP00000392288.1, ENST00000446507.5
  4. NM_138296.3NP_612153.2  pre T-cell antigen receptor alpha isoform 2 precursor

    See identical proteins and their annotated locations for NP_612153.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) lacks an alternate internal segment compared to isoform 1.
    Source sequence(s)
    AW014894, BC100771, U38996
    Consensus CDS
    CCDS4874.1
    UniProtKB/Swiss-Prot
    Q6ISU1
    Related
    ENSP00000304447.1, ENST00000304672.5
    Conserved Domains (1) summary
    pfam15028
    Location:20146
    PTCRA; Pre-T-cell antigen receptor

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    42915597..42925838
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024446346.1XP_024302114.1  pre T-cell antigen receptor alpha isoform X5

  2. XM_024446343.1XP_024302111.1  pre T-cell antigen receptor alpha isoform X2

    Conserved Domains (1) summary
    cl11960
    Location:16103
    Ig; Immunoglobulin domain
  3. XM_024446344.1XP_024302112.1  pre T-cell antigen receptor alpha isoform X3

  4. XM_024446342.1XP_024302110.1  pre T-cell antigen receptor alpha isoform X1

    Conserved Domains (1) summary
    pfam15028
    Location:1113
    PTCRA; Pre-T-cell antigen receptor
  5. XM_024446345.1XP_024302113.1  pre T-cell antigen receptor alpha isoform X4

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