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TARBP1 TAR (HIV-1) RNA binding protein 1 [ Homo sapiens (human) ]

Gene ID: 6894, updated on 9-Dec-2018

Summary

Official Symbol
TARBP1provided by HGNC
Official Full Name
TAR (HIV-1) RNA binding protein 1provided by HGNC
Primary source
HGNC:HGNC:11568
See related
Ensembl:ENSG00000059588 MIM:605052
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
TRM3; TRMT3; TRP185; TRP-185
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. This element forms a stable stem-loop structure and can be bound by either the protein encoded by this gene or by RNA polymerase II. This protein may act to disengage RNA polymerase II from TAR during transcriptional elongation. Alternatively spliced transcripts of this gene may exist, but their full-length natures have not been determined. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in lymph node (RPKM 7.3), prostate (RPKM 6.2) and 25 other tissues See more
Orthologs

Genomic context

See TARBP1 in Genome Data Viewer
Location:
1q42.2
Exon count:
32
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (234391313..234479174, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (234527059..234614863, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein S15 pseudogene 2 Neighboring gene COA6 antisense RNA 1 Neighboring gene cytochrome c oxidase assembly factor 6 Neighboring gene long intergenic non-protein coding RNA 1354 Neighboring gene uncharacterized LOC107985465

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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genetic correlates of brain aging on MRI and cognitive test measures: a genome-wide association and linkage analysis in the Framingham Study.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat downregulates TAR (HIV) RNA binding protein 1 in HEK 293T cells PubMed
tat HIV-1 Tat regulates the binding of TRP-185 to HIV-1 TAR RNA, which in turn regulates the binding of RNA polymerase II to TAR RNA PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ30482

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding IEA
Inferred from Electronic Annotation
more info
 
tRNA (guanine) methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
regulation of transcription by RNA polymerase II TAS
Traceable Author Statement
more info
PubMed 
tRNA methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
nucleus TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
probable methyltransferase TARBP1
Names
TAR (HIV) RNA-binding protein 1
TAR RNA loop binding protein
TAR RNA-binding protein 1
TAR RNA-binding protein of 185 kDa
tRNA methyltransferase 3 homolog

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.

mRNA and Protein(s)

  1. NM_005646.4NP_005637.3  probable methyltransferase TARBP1

    See identical proteins and their annotated locations for NP_005637.3

    Status: REVIEWED

    Source sequence(s)
    AL136124, AL355472, U38847
    Consensus CDS
    CCDS1601.1
    UniProtKB/Swiss-Prot
    Q13395
    Related
    ENSP00000040877.1, ENST00000040877.1
    Conserved Domains (1) summary
    pfam00588
    Location:14641606
    SpoU_methylase; SpoU rRNA Methylase family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    234391313..234479174 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011544263.2XP_011542565.1  probable methyltransferase TARBP1 isoform X2

    Conserved Domains (1) summary
    pfam00588
    Location:14401582
    SpoU_methylase; SpoU rRNA Methylase family
  2. XM_005273234.3XP_005273291.1  probable methyltransferase TARBP1 isoform X1

    Conserved Domains (1) summary
    pfam00588
    Location:14631605
    SpoU_methylase; SpoU rRNA Methylase family
  3. XM_017002197.1XP_016857686.1  probable methyltransferase TARBP1 isoform X6

  4. XM_017002195.1XP_016857684.1  probable methyltransferase TARBP1 isoform X4

    Conserved Domains (1) summary
    pfam00588
    Location:10081150
    SpoU_methylase; SpoU rRNA Methylase family
  5. XM_017002196.1XP_016857685.1  probable methyltransferase TARBP1 isoform X5

  6. XM_017002194.2XP_016857683.1  probable methyltransferase TARBP1 isoform X3

RNA

  1. XR_001737382.2 RNA Sequence

  2. XR_001737378.2 RNA Sequence

  3. XR_001737376.2 RNA Sequence

  4. XR_001737381.2 RNA Sequence

  5. XR_001737375.1 RNA Sequence

  6. XR_949155.2 RNA Sequence

  7. XR_001737374.1 RNA Sequence

  8. XR_001737383.1 RNA Sequence

  9. XR_001737379.2 RNA Sequence

  10. XR_002957455.1 RNA Sequence

  11. XR_001737377.1 RNA Sequence

  12. XR_002957456.1 RNA Sequence

  13. XR_949158.3 RNA Sequence

  14. XR_001737380.2 RNA Sequence

  15. XR_949157.2 RNA Sequence

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