TARBP2 TARBP2 subunit of RISC loading complex [Homo sapiens (human)] - Gene

Summary

Official Symbol: TARBP2provided by HGNC
Official Full Name: TARBP2 subunit of RISC loading complexprovided by HGNC
Primary source: HGNC:HGNC:11569
See related: Ensembl:ENSG00000139546 MIM:605053; AllianceGenome:HGNC:11569
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: LOQS; TRBP; TRBP1; TRBP2
Summary: HIV-1, the causative agent of acquired immunodeficiency syndrome (AIDS), contains an RNA genome that produces a chromosomally integrated DNA during the replicative cycle. Activation of HIV-1 gene expression by the transactivator Tat is dependent on an RNA regulatory element (TAR) located downstream of the transcription initiation site. The protein encoded by this gene binds between the bulge and the loop of the HIV-1 TAR RNA regulatory element and activates HIV-1 gene expression in synergy with the viral Tat protein. Alternative splicing results in multiple transcript variants encoding different isoforms. This gene also has a pseudogene. [provided by RefSeq, Jul 2008]
Expression: Ubiquitous expression in placenta (RPKM 7.8), testis (RPKM 6.1) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 12q13.13

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	12	NC_000012.12 (53500923..53506431)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	12	NC_060936.1 (53466928..53472436)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	12	NC_000012.11 (53894707..53900215)

Chromosome 12 - NC_000012.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

TARBP2 Suppresses Ubiquitin-Proteasomal Degradation of HIF-1alpha in Breast Cancer.
Title: TARBP2 Suppresses Ubiquitin-Proteasomal Degradation of HIF-1α in Breast Cancer.
Opposite actions of two dsRNA-binding proteins PACT and TRBP on RIG-I mediated signaling.
Title: Opposite actions of two dsRNA-binding proteins PACT and TRBP on RIG-I mediated signaling.
TARBP2 promotes tumor angiogenesis and metastasis by destabilizing antiangiogenic factor mRNAs.
Title: TARBP2 promotes tumor angiogenesis and metastasis by destabilizing antiangiogenic factor mRNAs.
Hypoxia-induced let-7f-5p/TARBP2 feedback loop regulates osteosarcoma cell proliferation and invasion by inhibiting the Wnt signaling pathway.
Title: Hypoxia-induced let-7f-5p/TARBP2 feedback loop regulates osteosarcoma cell proliferation and invasion by inhibiting the Wnt signaling pathway.
Our findings may shed light on the mechanism of apoptosis, induced by the TRBP-bound miRNAs through the interaction of TRBP with LGP2, as an antiviral defense system in mammalian cells.
Title: LGP2 virus sensor enhances apoptosis by upregulating apoptosis regulatory genes through TRBP-bound miRNAs during viral infection.
TARBP2 affects tumor growth in the lung and that this is dependent on TARBP2-mediated destabilization of ABCA3 and FOXN3. Finally, we establish ZNF143 as an upstream regulator of TARBP2 expression.
Title: Nuclear TARBP2 Drives Oncogenic Dysregulation of RNA Splicing and Decay.
The TARBP2 protein was destabilized through autophagic-lysosomal proteolysis, thereby stabilizing the expression of the cancer stem cell marker protein Nanog, which facilitates sorafenib resistance in Hepatocellular carcinoma cells.
Title: TARBP2-mediated destabilization of Nanog overcomes sorafenib resistance in hepatocellular carcinoma.
LGP2 represses specific miRNA activities by interacting with TRBP, resulting in selective regulation of target genes. This novel function of LGP2 is to modulate RNA silencing, indicating the crosstalk between RNA silencing and RLR signaling in mammalian cells.
Title: LGP2 virus sensor regulates gene expression network mediated by TRBP-bound microRNAs.
In this study, we attempted to gain deeper insights into the molecular mechanism by which Loqs-PB and TRBP tune miRNA length...We examined the difference of mean miRNA length and length heterogeneity caused by the addition of PACT or TRBP, compared with HsDicer alone, for each pre-miR-132 variant
Title: Dicer partner protein tunes the length of miRNAs using base-mismatch in the pre-miRNA stem.
TARBP2 participates in the interaction between IRF7 and TRAF6, thereby suppressing TRAF6-mediated K63-linked ubiquitination of IRF7.
Title: TARBP2 inhibits IRF7 activation by suppressing TRAF6-mediated K63-linked ubiquitination of IRF7.

Submit: New GeneRIF Correction See all GeneRIFs (57)

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)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Gag-Pol	gag-pol	The binding of HIV-1 TAR and RRE to TRBP displaces small interfering (si) RNAs from binding to TRBP, but RNA interference is restored when HIV-1 Rev or GagPol are coexpressed in cells	PubMed
Rev	rev	The binding of HIV-1 TAR and RRE to TRBP displaces small interfering (si) RNAs from binding to TRBP, but RNA interference is restored when HIV-1 Rev or GagPol are coexpressed in cells	PubMed
	rev	HIV-1 Rev binds TRBP/PACT complex and the binding requires the arginine rich motif (residues 35-50) of HIV-1 Rev	PubMed
Tat	tat	HIV-1 Tat binds TRBP/PACT complex and the binding requires the arginine rich motif (residues 48-58) of HIV-1 Tat	PubMed
	tat	TRBP2 binds to HIV-1 TAR RNA and synergizes with HIV-1 Tat to activate the HIV-1 LTR promoter	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

G42930 (e-PCR)
- UniSTS:13350

STS-R72841 (e-PCR)
- UniSTS:67883

RH120510 (e-PCR)
- UniSTS:133675

TARBP2__5191 (e-PCR)
- UniSTS:466499

STS-M60801 (e-PCR)
- UniSTS:14039

RH39878 (e-PCR)
- UniSTS:88059

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables double-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables enzyme binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables miRNA binding	IEA Inferred from Electronic Annotation more info
enables pre-mRNA binding	TAS Traceable Author Statement more info	PubMed
contributes_to pre-miRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables pre-miRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein sequestering activity	IDA Inferred from Direct Assay more info	PubMed
enables siRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables siRNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in RISC complex assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in global gene silencing by mRNA cleavage	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in miRNA processing	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of cytoplasmic pattern recognition receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of defense response to virus by host	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of protein kinase activity	TAS Traceable Author Statement more info	PubMed
involved_in positive regulation of viral genome replication	IDA Inferred from Direct Assay more info	PubMed
involved_in pre-miRNA processing	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of miRNA processing	IEA Inferred from Electronic Annotation more info
involved_in regulation of regulatory ncRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of siRNA processing	IEA Inferred from Electronic Annotation more info
involved_in regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in regulation of viral transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in siRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in siRNA processing	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
part_of RISC complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC complex	IDA Inferred from Direct Assay more info	PubMed
part_of RISC-loading complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC-loading complex	IDA Inferred from Direct Assay more info	PubMed
part_of RISC-loading complex	IPI Inferred from Physical Interaction more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	TAS Traceable Author Statement more info
located_in nuclear body	IDA Inferred from Direct Assay more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: RISC-loading complex subunit TARBP2

Names: TAR (HIV) RNA-binding protein 2; TAR (HIV) RNA-binding protein TRBP1; TAR (HIV-1) RNA binding protein 2; TAR RNA binding protein 2; TARBP2, RISC loading complex RNA binding subunit; trans-activation responsive RNA-binding protein

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_004178.5 → NP_004169.3 RISC-loading complex subunit TARBP2 isoform b

See identical proteins and their annotated locations for NP_004169.3

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks an internal segment in the 5' region, and uses a downstream AUG codon for translation, as compared to variant 1. The encoded isoform (b) thus has a shorter N-terminus, as compared to isoform a.

Source sequence(s)

BC002419, M60801

Consensus CDS

CCDS41791.1

UniProtKB/TrEMBL

A8K3X2

Related

ENSP00000416077.2, ENST00000456234.6

Conserved Domains (3) summary

cd10844
Location:138 → 204

DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19890
Location:6 → 77

DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19893
Location:271 → 342

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
NM_134323.2 → NP_599150.1 RISC-loading complex subunit TARBP2 isoform a

See identical proteins and their annotated locations for NP_599150.1

Status: REVIEWED

Description

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

Source sequence(s)

BC002419, BC005860

Consensus CDS

CCDS8861.1

UniProtKB/Swiss-Prot

Q12878, Q15633, Q8WY32, Q8WY33, Q9BRY2

UniProtKB/TrEMBL

A8K3X2

Related

ENSP00000266987.2, ENST00000266987.7

Conserved Domains (3) summary

cd10844
Location:159 → 225

DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19890
Location:27 → 98

DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19893
Location:292 → 363

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
NM_134324.3 → NP_599151.2 RISC-loading complex subunit TARBP2 isoform b

See identical proteins and their annotated locations for NP_599151.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) has an alternate 5' exon and uses a downstream AUG codon for translation, as compared to variant 1. The encoded isoform (b) thus has a shorter N-terminus, as compared to isoform a.

Source sequence(s)

AC023509, BC002419, BI771121

Consensus CDS

CCDS41791.1

UniProtKB/TrEMBL

A8K3X2

Related

ENSP00000377885.2, ENST00000394357.6

Conserved Domains (3) summary

cd10844
Location:138 → 204

DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19890
Location:6 → 77

DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19893
Location:271 → 342

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000012.12 Reference GRCh38.p14 Primary Assembly

Range

53500923..53506431

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047429485.1 → XP_047285441.1 RISC-loading complex subunit TARBP2 isoform X2

Related

ENSP00000447767.1, ENST00000550407.1
XM_005269115.2 → XP_005269172.1 RISC-loading complex subunit TARBP2 isoform X1

See identical proteins and their annotated locations for XP_005269172.1

UniProtKB/TrEMBL

A8K3X2

Conserved Domains (3) summary

cd10844
Location:138 → 204

DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19890
Location:6 → 77

DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins

cd19893
Location:271 → 342

DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
XM_017019911.3 → XP_016875400.1 RISC-loading complex subunit TARBP2 isoform X3

Conserved Domains (1) summary

cd00048
Location:15 → 78

DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
XM_011538712.4 → XP_011537014.1 RISC-loading complex subunit TARBP2 isoform X3

See identical proteins and their annotated locations for XP_011537014.1

Conserved Domains (1) summary

cd00048
Location:15 → 78

DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...