TRA2B transformer 2 beta homolog (Drosophila) [Homo sapiens] - Gene

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Summary

Official Symbol: TRA2Bprovided by HGNC
Official Full Name: transformer 2 beta homolog (Drosophila)provided by HGNC
Primary source: HGNC:10781
See related: Ensembl:ENSG00000136527; HPRD:04097; MIM:602719; Vega:OTTHUMG00000156641
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; TRA2-BETA; Htra2-beta; DKFZp686F18120
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]

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Genomic context

Location :: 3q26.2-q27

Sequence :: Chromosome: 3; NC_000003.11 (185632356..185655924, complement)

See TRA2B in Epigenomics, MapViewer

Chromosome 3 - NC_000003.11 Genomic Context describing neighboring genes

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Genomic regions, transcripts, and products

Genomic Sequence

Go to nucleotideGraphics FASTA GenBank

Go to reference sequence details

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Bibliography

GeneRIFs: Gene References Into Functions What's a GeneRIF?

reduced expression of SFRS10, as observed in tissues from obese humans, alters LPIN1 splicing, induces lipogenesis, and therefore contributes to metabolic phenotypes associated with obesity.
Title: Expression of the splicing factor gene SFRS10 is reduced in human obesity and contributes to enhanced lipogenesis.
nuclear hnRNP G level as well as hTra2-beta1 level were independent prognostic factors for endometrial cancer progression-free survival
Title: Expression levels of hnRNP G and hTra2-beta1 correlate with opposite outcomes in endometrial cancer biology.
Results indicates that the Human Transformer2-beta RNA recognition motif recognizes two types of RNA sequences in different RNA binding modes.
Title: Structural basis for the dual RNA-recognition modes of human Tra2-β RRM.
DARPP-32 changes the usage of tra2-beta1 dependent alternative exons in a concentration-dependent manner, suggesting that the DARPP-32:tra2-beta1 interaction is a molecular link between signaling pathways and pre-mRNA processing.
Title: DARPP-32 binds to tra2-beta1 and influences alternative splicing.
hTra2-beta1 expression in cervical cancer. The observed shuttle process of this splicing factor with higher concentrations in the nucleus effects on the cellular function and tumor biology, leading to the worse patient outcome.
Title: Significance of nuclear hTra2-beta1 expression in cervical cancer.
Tra2beta1 transcript levels are developmentally regulated in a tissue- and temporal-specific pattern, although expression is ubiquitous.
Title: Expression of Tra2beta isoforms is developmentally regulated in a tissue- and temporal-specific pattern.
interacts with calcitonin/CGRP exon 4 exonic splice enhancer; required for calcitonin splicing in vitro
Title: Human transformer 2beta and SRp55 interact with a calcitonin-specific splice enhancer.
results implicate the human tau gene as a target gene for the alternative splicing regulator Tra2 beta protein, suggesting that Tra2 beta may play a role in aberrant tau exon 10 alternative splicing
Title: Mutations in tau gene exon 10 associated with FTDP-17 alter the activity of an exonic splicing enhancer to interact with Tra2 beta.
Reduced SMN protein levels cause a reduction in the amount of its interacting proteins and of Htra2-beta1 in both discordant and non-discordant spinal muscular atrophy phenotypes.
Title: Evidence for a modifying pathway in SMA discordant families: reduced SMN level decreases the amount of its interacting partners and Htra2-beta1.

Submit: New GeneRIF Correction

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Phenotypes

Review eQTL and phenotype association data in this region using PheGenI

Genome-wide association yields new sequence variants at seven loci that associate with measures of obesity.

Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies.

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Products	Interactant	Other Gene	Source	Pubs	Description
NP_004584.1	NP_006702.1	RNPS1	BIND	PubMed	RNPS1 interacts with hTra2-beta.
P62995	Influenza virus NS1A binding protein	IVNS1ABP	HPRD	PubMed
P62995	P51884	LUM	HPRD	PubMed
P62995	P08138	NGFR	HPRD	PubMed
P62995	P38159	RBMX	HPRD	PubMed
P62995	Heterogeneous nuclear ribonucleoprotein G T	RBMXL2	HPRD	PubMed
P62995	Q15414	RBMY1A1	HPRD	PubMed
P62995	Q15287	RNPS1	HPRD	PubMed
P62995	Q8WXA9	SREK1	HPRD	PubMed
P62995	Q13242	SRSF9	HPRD	PubMed
P62995	Q9Y5L0	TNPO3	HPRD	PubMed
P62995	Q96MU7	YTHDC1	HPRD	PubMed
BioGRID:112332	BioGRID:114342	BANF1	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:111456	POU5F1	BioGRID	PubMed	Affinity Capture-RNA
BioGRID:112332	BioGRID:114952	RBM39	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:118134	RBMX	BioGRID	PubMed	Affinity Capture-Western; Reconstituted Complex
BioGRID:112332	BioGRID:116125	RNPS1	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:126754	SREK1	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:114231	SRSF9	BioGRID	PubMed	Reconstituted Complex
BioGRID:112332	BioGRID:112497	SUMO2	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:249003	Safb	BioGRID	PubMed	Reconstituted Complex; Two-hybrid
BioGRID:112332	BioGRID:112734	TADA2A	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:113164	UBC	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:113364	YWHAG	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:113366	YWHAZ	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:204613	Ybx1	BioGRID	PubMed	Affinity Capture-MS
BioGRID:112332	BioGRID:114802	ZRANB2	BioGRID	PubMed	Protein-RNA

Function	Evidence Code	Pubs
mRNA binding	IDA Inferred from Direct Assay more info	PubMed
nucleotide binding	IEA Inferred from Electronic Annotation more info
protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
RNA splicing, via transesterification reactions	TAS Traceable Author Statement more info	PubMed
nuclear mRNA splicing, via spliceosome	IDA Inferred from Direct Assay more info	PubMed
positive regulation of nuclear mRNA splicing, via spliceosome	IDA Inferred from Direct Assay more info	PubMed
regulation of alternative nuclear mRNA splicing, via spliceosome	IDA Inferred from Direct Assay more info	PubMed
response to reactive oxygen species	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

Preferred Names: transformer-2 protein homolog beta

Names: transformer-2 protein homolog beta; TRA-2 beta; transformer-2 protein homolog B; splicing factor, arginine/serine-rich 10 (transformer 2 homolog, Drosophila)

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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

NG_029862.1 RefSeqGene

Range

5001..28569

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

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

UniProtKB/Swiss-Prot

P62995

Conserved Domains (1) summary

cd00590
Location:22 – 93
Blast Score: 227

RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...
NM_004593.2 → NP_004584.1 transformer-2 protein homolog beta isoform 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, OTTHUMP00000210273, ENST00000453386, OTTHUMT00000344984

Conserved Domains (1) summary

cd00590
Location:122 – 193
Blast Score: 230

RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...

RefSeqs of Annotated Genomes: Build 37.3

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

Reference GRCh37.p5 Primary Assembly

Genomic

NC_000003.11 Reference GRCh37.p5 Primary Assembly

Range

185632356..185655924, complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate HuRef

Genomic

AC_000135.1 Alternate HuRef

Range

183042973..183066541, complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

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Related Sequences

Nucleotide		Protein
Heading	Accession and Version	Protein
genomic	AC009247.13 (96072..119471)	None
genomic	AF057159.1	AAD19277.1
		AAD19278.1
		AAD19279.1
genomic	CH471052.2	EAW78204.1
		EAW78205.1
		EAW78206.1
		EAW78207.1
		EAW78208.1
mRNA	AB209208.1	BAD92445.1
mRNA	AK091863.1	None
mRNA	AK094495.1	None
mRNA	AK098191.1	BAC05256.1
mRNA	AK125610.1	None
mRNA	AK301118.1	BAG62714.1
mRNA	AK308267.1	None
mRNA	AK315632.1	BAG38000.1
mRNA	BC000160.2	AAH00160.1
mRNA	BC000451.2	AAH00451.1
mRNA	BC005898.1	AAH05898.1
mRNA	CR749214.1	CAH18071.1
mRNA	DA164444.1	None
mRNA	U61267.1	AAC28242.1
mRNA	U68063.1	AAB08701.1
mRNA	U87836.1	AAB69763.1
other-genetic	DQ890937.2	ABM81863.1
other-genetic	EU176532.1	ABW03333.1

Protein Accession	Links
Protein Accession	GenPept Link	UniProtKB Link
P62995.1	GenPept	UniProtKB/Swiss-Prot:P62995
Q59GA1	GenPept	UniProtKB/TrEMBL:Q59GA1
Q68DZ9	GenPept	UniProtKB/TrEMBL:Q68DZ9
Q8N1H4	GenPept	UniProtKB/TrEMBL:Q8N1H4