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

    Gene ID: 6895, updated on 17-Jun-2024

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See TARBP2 in Genome Data Viewer
    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_000012.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6422 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4511 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4512 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4513 Neighboring gene proline rich 13 Neighboring gene poly(rC) binding protein 2 Neighboring gene PCBP2 overlapping transcript 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:53876139-53876652 Neighboring gene mitogen-activated protein kinase kinase kinase 12 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4514 Neighboring gene Sharpr-MPRA regulatory region 1043 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4515 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6423 Neighboring gene Sharpr-MPRA regulatory region 3466 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:53902821-53903053 Neighboring gene uncharacterized LOC100652999 Neighboring gene ATF7-NPFF readthrough Neighboring gene ReSE screen-validated silencer GRCh37_chr12:53909665-53909906 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:53910873-53911372 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

    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

    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/TrEMBL
      A8K3X2
      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
      Q12878, Q15633, Q8WY32, Q8WY33, Q9BRY2
      UniProtKB/TrEMBL
      A8K3X2
      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/TrEMBL
      A8K3X2
      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: 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

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

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

    mRNA and Protein(s)

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

      UniProtKB/TrEMBL
      F8VZ57
      Related
      ENSP00000447767.1, ENST00000550407.1
    2. XM_005269115.2XP_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: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
    3. XM_017019911.3XP_016875400.1  RISC-loading complex subunit TARBP2 isoform X3

      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_011538712.4XP_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: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, ...

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      53466928..53472436
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054373103.1XP_054229078.1  RISC-loading complex subunit TARBP2 isoform X2

      UniProtKB/TrEMBL
      F8VZ57
    2. XM_054373102.1XP_054229077.1  RISC-loading complex subunit TARBP2 isoform X1

      UniProtKB/TrEMBL
      A8K3X2
    3. XM_054373104.1XP_054229079.1  RISC-loading complex subunit TARBP2 isoform X3

    4. XM_054373105.1XP_054229080.1  RISC-loading complex subunit TARBP2 isoform X3