Format

Send to:

Choose Destination

TRA2B transformer 2 beta homolog [ Homo sapiens (human) ]

Gene ID: 6434, updated on 5-Sep-2021

Summary

Official Symbol
TRA2Bprovided by HGNC
Official Full Name
transformer 2 beta homologprovided by HGNC
Primary source
HGNC:HGNC:10781
See related
Ensembl:ENSG00000136527 MIM:602719
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
SFRS10; SRFS10; TRAN2B; PPP1R156; TRA2-BETA; Htra2-beta
Summary
This gene encodes a nuclear protein which functions as sequence-specific serine/arginine splicing factor which plays a role in mRNA processing, splicing patterns, and gene expression. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2011]
Expression
Ubiquitous expression in bone marrow (RPKM 41.9), lymph node (RPKM 15.3) and 25 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See TRA2B in Genome Data Viewer
Location:
3q27.2
Exon count:
10
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (185914558..185938027, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (185632346..185655802, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene insulin like growth factor 2 mRNA binding protein 2 Neighboring gene VISTA enhancer hs1976 Neighboring gene Sharpr-MPRA regulatory region 6530 Neighboring gene Sharpr-MPRA regulatory region 2251 Neighboring gene NmrA like redox sensor 2, pseudogene Neighboring gene ETS variant transcription factor 5

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

Associated conditions

Description Tests
Genome-wide association yields new sequence variants at seven loci that associate with measures of obesity.
GeneReviews: Not available
Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
GeneReviews: Not available
Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies.
GeneReviews: Not available

HIV-1 interactions

Replication interactions

Interaction Pubs
Multiply spliced HIV-1 RNA is increased by TRA2B overexpression resulting in blocking of HIV-1 genomic RNA export PubMed
HIV-1 RNA splice site usage is altered by the overexpression of TRA2B (in 293T cells) and different isoforms of TRA2A exhibit different altered splice site usage patterns PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env synthesis is enhanced (slightly) by endogeneous levels of TRA2B; shRNA knockdown of TRA2B reduces Env synthesis slightly (~2 fold) in the HeLa rtTA HIVdletamls cell line (contains stably integrated, doxycycline (Dox) inducible HIV-1 provirus) PubMed
env HIV-1 Env protein expression is inhibited by the overexpression of TRA2A (in 293T cells), both full length isoform and truncated N-terminal isoform PubMed
Pr55(Gag) gag HIV-1 Gag protein expression is inhibited by the overexpression of TRA2A (in 293T cells), both full length isoform and truncated N-terminal isoform PubMed
Tat tat TRA2B (transformer 2 beta homolog) inhibits HIV-1 Tat-mediated transactivation activity in HEK293 cells PubMed
Vpr vpr The splicing factors TRA2-alpha and TRA2-beta bind to the exonic splicing enhancer ESEvpr for the activation of exon 3 inclusion, vpr mRNA splicing, and Vpr protein expression 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

Clone Names

  • DKFZp686F18120

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables RNA binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables identical protein binding IDA
Inferred from Direct Assay
more info
PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables pre-mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein domain specific binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in nuclear inner membrane IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus HDA PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of spliceosomal complex IMP
Inferred from Mutant Phenotype
more info
PubMed 

General protein information

Preferred Names
transformer-2 protein homolog beta
Names
TRA-2 beta
protein phosphatase 1, regulatory subunit 156
splicing factor, arginine/serine-rich 10 (transformer 2 homolog, Drosophila)
transformer-2 protein homolog B

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_029862.1 RefSeqGene

    Range
    5123..28579
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001243879.2NP_001230808.1  transformer-2 protein homolog beta isoform 2

    See identical proteins and their annotated locations for NP_001230808.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon in the 5' coding region and uses a downstream start codon, compared to variant 1. Isoform 2 has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC009247, AK301118, DA164444, U61267
    Consensus CDS
    CCDS58872.1
    UniProtKB/Swiss-Prot
    P62995
    Related
    ENSP00000371626.4, ENST00000382191.4
    Conserved Domains (1) summary
    cd12641
    Location:1197
    RRM_TRA2B; RNA recognition motif (RRM) found in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins
  2. NM_004593.3NP_004584.1  transformer-2 protein homolog beta isoform 1

    See identical proteins and their annotated locations for NP_004584.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC009247, BC000160, DA164444, U61267
    Consensus CDS
    CCDS33905.1
    UniProtKB/Swiss-Prot
    P62995
    Related
    ENSP00000416959.2, ENST00000453386.7
    Conserved Domains (1) summary
    cd12363
    Location:117196
    RRM_TRA2; RNA recognition motif (RRM) found in transformer-2 protein homolog TRA2-alpha, TRA2-beta and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    185914558..185938027 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005247703.2XP_005247760.1  transformer-2 protein homolog beta isoform X1

    See identical proteins and their annotated locations for XP_005247760.1

    UniProtKB/Swiss-Prot
    P62995
    Conserved Domains (1) summary
    cd12641
    Location:1197
    RRM_TRA2B; RNA recognition motif (RRM) found in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins
  2. XM_024453706.1XP_024309474.1  transformer-2 protein homolog beta isoform X1

    Conserved Domains (1) summary
    cd12641
    Location:1197
    RRM_TRA2B; RNA recognition motif (RRM) found in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins
Support Center