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

Gene ID: 6895, updated on 9-Jul-2021

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
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
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Genomic context

See TARBP2 in Genome Data Viewer
Location:
12q13.13
Exon count:
11
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (53500923..53506431)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (53894707..53900215)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene proline rich 13 Neighboring gene poly(rC) binding protein 2 Neighboring gene PCBP2 overlapping transcript 1 Neighboring gene mitogen-activated protein kinase kinase kinase 12 Neighboring gene Sharpr-MPRA regulatory region 3466 Neighboring gene ATF7-NPFF readthrough Neighboring gene neuropeptide FF-amide peptide precursor Neighboring gene activating transcription factor 7

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?

HIV-1 interactions

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

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
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 N-terminus binding IPI
Inferred from Physical Interaction
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 siRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
part_of RISC complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of RISC-loading complex IDA
Inferred from Direct Assay
more info
PubMed 
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
 
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 

General protein information

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)

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.

mRNA and Protein(s)

  1. NM_004178.5NP_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/Swiss-Prot
    Q15633
    Related
    ENSP00000416077.2, ENST00000456234.6
    Conserved Domains (3) summary
    cd10844
    Location:138204
    DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19890
    Location:677
    DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19893
    Location:271342
    DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
  2. NM_134323.2NP_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
    Q15633
    Related
    ENSP00000266987.2, ENST00000266987.7
    Conserved Domains (3) summary
    cd10844
    Location:159225
    DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19890
    Location:2798
    DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19893
    Location:292363
    DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
  3. NM_134324.3NP_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/Swiss-Prot
    Q15633
    Related
    ENSP00000377885.2, ENST00000394357.6
    Conserved Domains (3) summary
    cd10844
    Location:138204
    DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19890
    Location:677
    DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19893
    Location:271342
    DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 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_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    53500923..53506431
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005269117.1XP_005269174.1  RISC-loading complex subunit TARBP2 isoform X3

    Conserved Domains (2) summary
    smart00358
    Location:3179
    DSRM; Double-stranded RNA binding motif
    cd00048
    Location:159215
    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, ...
  2. XM_017019911.2XP_016875400.1  RISC-loading complex subunit TARBP2 isoform X5

    UniProtKB/TrEMBL
    A0A024RB49
    Conserved Domains (1) summary
    cd00048
    Location:1578
    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, ...
  3. XM_005269120.5XP_005269177.1  RISC-loading complex subunit TARBP2 isoform X5

    See identical proteins and their annotated locations for XP_005269177.1

    UniProtKB/TrEMBL
    A0A024RB49
    Conserved Domains (1) summary
    cd00048
    Location:1578
    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, ...
  4. XM_006719581.1XP_006719644.1  RISC-loading complex subunit TARBP2 isoform X2

    Conserved Domains (1) summary
    cd00048
    Location:60123
    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, ...
  5. XM_005269114.1XP_005269171.1  RISC-loading complex subunit TARBP2 isoform X1

    See identical proteins and their annotated locations for XP_005269171.1

    UniProtKB/Swiss-Prot
    Q15633
    Conserved Domains (3) summary
    cd10844
    Location:138204
    DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19890
    Location:677
    DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19893
    Location:271342
    DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
  6. XM_017019910.1XP_016875399.1  RISC-loading complex subunit TARBP2 isoform X4

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

    See identical proteins and their annotated locations for XP_005269172.1

    UniProtKB/Swiss-Prot
    Q15633
    Conserved Domains (3) summary
    cd10844
    Location:138204
    DSRM_TARBP2_rpt2; second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19890
    Location:677
    DSRM_TARBP2_rpt1; first double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
    cd19893
    Location:271342
    DSRM_TARBP2_rpt3; third double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins
  8. XM_005269122.4XP_005269179.1  RISC-loading complex subunit TARBP2 isoform X5

    See identical proteins and their annotated locations for XP_005269179.1

    UniProtKB/TrEMBL
    A0A024RB49
    Conserved Domains (1) summary
    cd00048
    Location:1578
    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, ...
  9. XM_011538712.3XP_011537014.1  RISC-loading complex subunit TARBP2 isoform X5

    See identical proteins and their annotated locations for XP_011537014.1

    UniProtKB/TrEMBL
    A0A024RB49
    Conserved Domains (1) summary
    cd00048
    Location:1578
    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, ...

RNA

  1. XR_944695.2 RNA Sequence

    Related
    ENST00000549572.5
  2. XR_001748860.2 RNA Sequence

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