TRAT1 T cell receptor associated transmembrane adaptor 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: TRAT1provided by HGNC
Official Full Name: T cell receptor associated transmembrane adaptor 1provided by HGNC
Primary source: HGNC:HGNC:30698
See related: Ensembl:ENSG00000163519 MIM:604962; AllianceGenome:HGNC:30698
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: TRIM; TCRIM; HSPC062; pp29/30
Summary: Predicted to enable transmembrane receptor protein tyrosine kinase adaptor activity. Acts upstream of or within negative regulation of receptor recycling; negative regulation of transport; and positive regulation of signal transduction. Located in centriolar satellite; mitotic spindle; and plasma membrane. Part of T cell receptor complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in lymph node (RPKM 11.9), appendix (RPKM 6.4) and 9 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 3q13.13

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
110	current	GRCh38.p14 (GCF_000001405.40)	3	NC_000003.12 (108822786..108855005)
110	current	T2T-CHM13v2.0 (GCF_009914755.1)	3	NC_060927.1 (111543021..111575233)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (108541633..108573852)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Targeting TRIM Proteins: A Quest towards Drugging an Emerging Protein Class.
Title: Targeting TRIM Proteins: A Quest towards Drugging an Emerging Protein Class.
TRIM proteins trim the balance of homoeostasis by modulating various biological pathways through protein-protein interactions.
Title: TRIM proteins as trim tabs for the homoeostasis.
MG53/TRIM72 protein can be directly applied as a therapeutic agent to increase membrane repair capacity of many cell types.
Title: TRIM proteins in therapeutic membrane repair of muscular dystrophy.
TRIM acts to chaperone CTLA-4 transport to the cell surface; this function would be required to account for the phenotypic and functional properties of CD8(+) Tregs.
Title: Human leukocyte antigen class I-restricted immunosuppression by human CD8+ regulatory T cells requires CTLA-4-mediated interaction with dendritic cells.

Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D3S1302 (e-PCR), detects polymorphism
- UniSTS:75366

D3S1302 (e-PCR), detects polymorphism
- UniSTS:38125

Homology

Homologs of the TRAT1 gene: The TRAT1 gene is conserved in chimpanzee, dog, cow, mouse, rat, and chicken.
Orthologs from Annotation Pipeline: 322 organisms have orthologs with human gene TRAT1
Orthologs

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transmembrane receptor protein tyrosine kinase adaptor activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in adaptive immune response	IEA Inferred from Electronic Annotation more info
involved_in cellular defense response	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of receptor recycling	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within negative regulation of receptor recycling	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of transport	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of T cell receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within positive regulation of T cell receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of calcium-mediated signaling	IDA Inferred from Direct Assay more info	PubMed
involved_in signal transduction	TAS Traceable Author Statement more info	PubMed
involved_in transmembrane receptor protein tyrosine kinase signaling pathway	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of T cell receptor complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
part_of T cell receptor complex	IDA Inferred from Direct Assay more info	PubMed
located_in centriolar satellite	IDA Inferred from Direct Assay more info
located_in mitotic spindle	IDA Inferred from Direct Assay more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: T-cell receptor-associated transmembrane adapter 1

Names: T cell receptor interacting molecule

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)

NM_001317747.2 → NP_001304676.1 T-cell receptor-associated transmembrane adapter 1 isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.

Source sequence(s)

AJ240085, AK291991, AV735609, BC025713

Consensus CDS

CCDS82814.1

UniProtKB/Swiss-Prot

Q6PIZ9

UniProtKB/TrEMBL

C9JF66

Related

ENSP00000410097.1, ENST00000426646.1

Conserved Domains (1) summary

pfam15330
Location:3 → 83

SIT; SHP2-interacting transmembrane adaptor protein, SIT
NM_016388.4 → NP_057472.2 T-cell receptor-associated transmembrane adapter 1 isoform 1

See identical proteins and their annotated locations for NP_057472.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AK291991, AV735609, BC025713

Consensus CDS

CCDS33813.1

UniProtKB/Swiss-Prot

Q6PIZ9, Q9NZX5

Related

ENSP00000295756.6, ENST00000295756.11

Conserved Domains (1) summary

pfam15330
Location:23 → 120

SIT; SHP2-interacting transmembrane adaptor protein, SIT