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Aliases for TARBP1 Gene

Aliases for TARBP1 Gene

  • TAR (HIV-1) RNA Binding Protein 1 2 3 5
  • TAR RNA-Binding Protein Of 185 KDa 3 4
  • TAR RNA-Binding Protein 1 3 4
  • TRP-185 3 4
  • TRP185 3 4
  • TRM3 3 4
  • TRNA Methyltransferase 3 Homolog (S. Cerevisiae) 2
  • Probable Methyltransferase TARBP1 3
  • TRNA Methyltransferase 3 Homolog 3
  • TAR (HIV) RNA-Binding Protein 1 3
  • TAR RNA Loop Binding Protein 3
  • EC 2.1.1.- 4

External Ids for TARBP1 Gene

Previous GeneCards Identifiers for TARBP1 Gene

  • GC01M232786
  • GC01M230099
  • GC01M230902
  • GC01M231611
  • GC01M230833
  • GC01M232593
  • GC01M234527
  • GC01M205020

Summaries for TARBP1 Gene

Entrez Gene Summary for TARBP1 Gene

  • 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]

GeneCards Summary for TARBP1 Gene

TARBP1 (TAR (HIV-1) RNA Binding Protein 1) is a Protein Coding gene. Diseases associated with TARBP1 include Hiv-1. GO annotations related to this gene include RNA binding and RNA methyltransferase activity.

UniProtKB/Swiss-Prot for TARBP1 Gene

  • Probable S-adenosyl-L-methionine-dependent methyltransferase which methylates RNA molecules such as tRNAs. In case of infection by HIV-1, it binds to the loop region of TAR RNA, a region also bound by RNA polymerase II. Binding of TARBP1 and RNA polymerase II to HIV-1 TAR RNA is mutually exclusive, suggesting that TARBP1 may function alone or in conjunction with HIV-1 Tat to disengage RNA polymerase II from HIV-1 TAR RNA. May act by methylating HIV-1 TAR RNA.

Gene Wiki entry for TARBP1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TARBP1 Gene

Genomics for TARBP1 Gene

Regulatory Elements for TARBP1 Gene

Enhancers for TARBP1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G234598 2.2 FANTOM5 Ensembl ENCODE dbSUPER 21.2 -132.7 -132689 26.9 CREB3L1 MLX AGO1 ZFP64 DMAP1 FEZF1 YY1 SLC30A9 ZNF416 ZNF143 RPS21P1 IRF2BP2 TBCE TARBP1 LINC01354 LINC00184
GH01G234581 1.9 FANTOM5 Ensembl ENCODE dbSUPER 11 -105.3 -105289 6.2 FOXA2 PKNOX1 MLX ARID4B DMAP1 FEZF1 YY1 ZNF766 FOS ZNF548 GGPS1 RPS21P1 IRF2BP2 TARBP1 LINC01354 GC01P234594 ENSG00000230404
GH01G234865 1.6 Ensembl ENCODE dbSUPER 10.7 -387.5 -387526 2.6 HDGF PKNOX1 CREB3L1 ARID4B SIN3A ZNF766 CBX5 FOS KLF13 SP5 RPS21P1 TARBP1 PIR44809 RNY4P16
GH01G235090 1.5 Ensembl ENCODE dbSUPER 11.3 -611.6 -611617 1.5 PKNOX1 ATF1 ARID4B YY1 ZNF766 GATA2 ZNF143 ZNF263 ZHX2 NCOA1 TOMM20 IRF2BP2 ENSG00000228830 SNORA14B TARBP1 ENSG00000212144 GGPS1 ENSG00000233018 LINC01348
GH01G233667 1.3 Ensembl ENCODE 10.7 +810.3 810295 1.9 HDGF PKNOX1 ATF1 CREB3L1 ARNT TCF12 ZNF766 GATA2 FOS JUNB KCNK1 TARBP1 GC01P233696 MIR4427
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TARBP1 on UCSC Golden Path with GeneCards custom track

Promoters for TARBP1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000022073 458 1800 PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 ZNF2 ZNF766 ZNF207 FOS KLF13

Genomic Location for TARBP1 Gene

Chromosome:
1
Start:
234,391,313 bp from pter
End:
234,479,158 bp from pter
Size:
87,846 bases
Orientation:
Minus strand

Genomic View for TARBP1 Gene

Genes around TARBP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TARBP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TARBP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TARBP1 Gene

Proteins for TARBP1 Gene

  • Protein details for TARBP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13395-TARB1_HUMAN
    Recommended name:
    Probable methyltransferase TARBP1
    Protein Accession:
    Q13395
    Secondary Accessions:
    • Q9H581

    Protein attributes for TARBP1 Gene

    Size:
    1621 amino acids
    Molecular mass:
    181675 Da
    Quaternary structure:
    • Monomer and homodimer.

    Three dimensional structures from OCA and Proteopedia for TARBP1 Gene

neXtProt entry for TARBP1 Gene

Post-translational modifications for TARBP1 Gene

  • Ubiquitination at Lys239 and isoforms=449
  • Modification sites at PhosphoSitePlus

Other Protein References for TARBP1 Gene

No data available for DME Specific Peptides for TARBP1 Gene

Domains & Families for TARBP1 Gene

Gene Families for TARBP1 Gene

Suggested Antigen Peptide Sequences for TARBP1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q13395

UniProtKB/Swiss-Prot:

TARB1_HUMAN :
  • Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.
Family:
  • Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family.
genes like me logo Genes that share domains with TARBP1: view

Function for TARBP1 Gene

Molecular function for TARBP1 Gene

UniProtKB/Swiss-Prot Function:
Probable S-adenosyl-L-methionine-dependent methyltransferase which methylates RNA molecules such as tRNAs. In case of infection by HIV-1, it binds to the loop region of TAR RNA, a region also bound by RNA polymerase II. Binding of TARBP1 and RNA polymerase II to HIV-1 TAR RNA is mutually exclusive, suggesting that TARBP1 may function alone or in conjunction with HIV-1 Tat to disengage RNA polymerase II from HIV-1 TAR RNA. May act by methylating HIV-1 TAR RNA.

Enzyme Numbers (IUBMB) for TARBP1 Gene

Gene Ontology (GO) - Molecular Function for TARBP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA,TAS --
GO:0008168 methyltransferase activity IEA --
GO:0008173 RNA methyltransferase activity IEA --
GO:0016423 tRNA (guanine) methyltransferase activity IBA --
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with TARBP1: view
genes like me logo Genes that share phenotypes with TARBP1: view

Animal Model Products

CRISPR Products

miRNA for TARBP1 Gene

miRTarBase miRNAs that target TARBP1

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TARBP1 Gene

Localization for TARBP1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TARBP1 gene
Compartment Confidence
nucleus 5
cytosol 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for TARBP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 8846792
genes like me logo Genes that share ontologies with TARBP1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TARBP1 Gene

Pathways & Interactions for TARBP1 Gene

SuperPathways for TARBP1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for TARBP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000453 enzyme-directed rRNA 2-O-methylation IBA --
GO:0006357 regulation of transcription from RNA polymerase II promoter TAS 8846792
GO:0006396 RNA processing IEA --
GO:0030488 tRNA methylation IBA --
GO:0032259 methylation IEA --
genes like me logo Genes that share ontologies with TARBP1: view

No data available for Pathways by source and SIGNOR curated interactions for TARBP1 Gene

Drugs & Compounds for TARBP1 Gene

(2) Drugs for TARBP1 Gene - From: ApexBio and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Maraviroc Approved, Investigational Pharma Antagonist Selective CCR5 antagonist,antiretroviral agent 144
S-Adenosylmethionine Approved Nutra 0

(1) ApexBio Compounds for TARBP1 Gene

Compound Action Cas Number
Maraviroc Selective CCR5 antagonist,antiretroviral agent 376348-65-1
genes like me logo Genes that share compounds with TARBP1: view

Drug Products

Transcripts for TARBP1 Gene

Unigene Clusters for TARBP1 Gene

TAR (HIV-1) RNA binding protein 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TARBP1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23a · 23b · 23c ^ 24 ^
SP1: - -
SP2:
SP3: - -
SP4:
SP5:
SP6:
SP7:

ExUns: 25a · 25b ^ 26 ^ 27 ^ 28 ^ 29 ^ 30a · 30b ^ 31 ^ 32a · 32b ^ 33a · 33b · 33c · 33d
SP1: - - - -
SP2: - -
SP3: -
SP4: - - -
SP5: - -
SP6:
SP7:

Relevant External Links for TARBP1 Gene

GeneLoc Exon Structure for
TARBP1
ECgene alternative splicing isoforms for
TARBP1

Expression for TARBP1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TARBP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TARBP1 Gene

This gene is overexpressed in Plasma (13.4), Heart (12.6), and Lung (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TARBP1 Gene



NURSA nuclear receptor signaling pathways regulating expression of TARBP1 Gene:

TARBP1

SOURCE GeneReport for Unigene cluster for TARBP1 Gene:

Hs.498115

Evidence on tissue expression from TISSUES for TARBP1 Gene

  • Nervous system(2.6)
genes like me logo Genes that share expression patterns with TARBP1: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TARBP1 Gene

Orthologs for TARBP1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for TARBP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TARBP1 34 35
  • 99.14 (n)
dog
(Canis familiaris)
Mammalia TARBP1 34 35
  • 87.54 (n)
cow
(Bos Taurus)
Mammalia TARBP1 34 35
  • 87.23 (n)
mouse
(Mus musculus)
Mammalia Gm17296 34 35
  • 76.63 (n)
Tarbp1 16
rat
(Rattus norvegicus)
Mammalia LOC679346 34
  • 73.73 (n)
oppossum
(Monodelphis domestica)
Mammalia TARBP1 35
  • 73 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TARBP1 35
  • 53 (a)
OneToOne
chicken
(Gallus gallus)
Aves TARBP1 34 35
  • 71.23 (n)
lizard
(Anolis carolinensis)
Reptilia TARBP1 35
  • 60 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tarbp1 34
  • 59.88 (n)
zebrafish
(Danio rerio)
Actinopterygii TARBP1 (2 of 2) 35
  • 67 (a)
OneToMany
si:dkey-85a20.4 34
  • 54.57 (n)
TARBP1 (1 of 2) 35
  • 42 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG18596 35
  • 23 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea T14B4.1 36 35
  • 47 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TRM3 35 37
  • 17 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8089 35
  • 36 (a)
OneToOne
Species where no ortholog for TARBP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TARBP1 Gene

ENSEMBL:
Gene Tree for TARBP1 (if available)
TreeFam:
Gene Tree for TARBP1 (if available)

Paralogs for TARBP1 Gene

No data available for Paralogs for TARBP1 Gene

Variants for TARBP1 Gene

Sequence variations from dbSNP and Humsavar for TARBP1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000024839 -- 234,480,740(+) GATGA(A/G)AATGG upstream-variant-2KB
rs1000025228 -- 234,391,308(+) AGGAA(-/AT)AAATT downstream-variant-500B
rs1000038477 -- 234,470,953(+) ATGAG(G/T)AGATG intron-variant
rs1000045628 -- 234,410,868(+) AGGGG(G/T)TTGAG intron-variant
rs1000074225 -- 234,475,207(+) TAGAG(A/G)GGCCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TARBP1 Gene

Variant ID Type Subtype PubMed ID
dgv29n21 CNV loss 19592680
dgv300n106 CNV deletion 24896259
dgv585n100 CNV gain 25217958
dgv858n54 CNV gain 21841781
esv1010367 CNV deletion 20482838
esv1731674 CNV deletion 17803354
esv21821 CNV loss 19812545
esv2665005 CNV deletion 23128226
esv2725207 CNV deletion 23290073
esv3384971 CNV insertion 20981092
esv3548611 CNV deletion 23714750
esv3548622 CNV deletion 23714750
esv3589169 CNV loss 21293372
esv3589170 CNV loss 21293372
esv3589171 CNV loss 21293372
esv3589173 CNV loss 21293372
esv3891226 CNV loss 25118596
esv4245 CNV loss 18987735
nsv1068971 CNV deletion 25765185
nsv1068976 CNV deletion 25765185
nsv1069404 CNV deletion 25765185
nsv1113228 CNV deletion 24896259
nsv1143479 CNV deletion 24896259
nsv4910 CNV deletion 18451855
nsv549371 CNV gain+loss 21841781
nsv549372 CNV gain 21841781
nsv549374 CNV loss 21841781
nsv953984 CNV deletion 24416366
nsv958709 CNV deletion 24416366

Variation tolerance for TARBP1 Gene

Residual Variation Intolerance Score: 41.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.82; 91.71% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TARBP1 Gene

Human Gene Mutation Database (HGMD)
TARBP1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TARBP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TARBP1 Gene

Disorders for TARBP1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for TARBP1 Gene - From: GeneCards

Disorder Aliases PubMed IDs
hiv-1
  • aids, slow progression to
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for TARBP1

Genetic Association Database (GAD)
TARBP1
Human Genome Epidemiology (HuGE) Navigator
TARBP1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TARBP1
genes like me logo Genes that share disorders with TARBP1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TARBP1 Gene

Publications for TARBP1 Gene

  1. Identification of a group of cellular cofactors that stimulate the binding of RNA polymerase II and TRP-185 to human immunodeficiency virus 1 TAR RNA. (PMID: 8626763) Wu-Baer F. … Gaynor R.B. (J. Biol. Chem. 1996) 3 4 22 64
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  3. Crystal structure of the methyltransferase domain of human TARBP1. (PMID: 18412263) Wu H. … Plotnikov A.N. (Proteins 2008) 3 4 64
  4. Genetic correlates of brain aging on MRI and cognitive test measures: a genome-wide association and linkage analysis in the Framingham Study. (PMID: 17903297) Seshadri S. … Wolf P.A. (BMC Med. Genet. 2007) 3 46 64
  5. Small interfering RNAs against the TAR RNA binding protein, TRBP, a Dicer cofactor, inhibit human immunodeficiency virus type 1 long terminal repeat expression and viral production. (PMID: 17360756) Christensen H.S. … Gatignol A. (J. Virol. 2007) 3 22 64

Products for TARBP1 Gene

Sources for TARBP1 Gene

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