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Aliases & Descriptions for TARBP1
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase) About This Section
|
| Aliases |
|---|
| EC 2.1.1.- 3 | | FLJ30482 2 | | OTTHUMP00000036048 2 | | TRM3 1, 2, 3 | | TRP-185 1, 2, 3 | | TRP185 2, 3, 5 |
| | | Descriptions |
|---|
| TAR (HIV) RNA binding protein 1 2 | | TAR (HIV) RNA-binding protein 1 2 | | TAR (HIV-1) RNA binding protein 1 1, 2 | | TAR RNA binding protein 1 2 | | TAR RNA loop binding protein 2 | | TAR RNA-binding protein 1 3 | | TAR RNA-binding protein of 185 kDa 3 |
|
| | Search outside databases for aliases for TARBP1 genePrevious GC identifers: GC01M232786 GC01M230099 GC01M230902 GC01M231611 GC01M230833 |
Summaries for TARBP1(According to Entrez Gene,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| EntrezGene summary for TARBP1: 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] UniProtKB/Swiss-Prot: TARB1_HUMAN, Q13395Function: 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 RNAGene Wiki entry for TARBP1 |
Genomic Location for TARBP1
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to
UCSC and
Ensembl,
Transcription factor binding sites according to
SABiosciences) About This Section
| Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1q42.3 Ensembl cytogenetic band: 1q42.2 HGNC cytogenetic band: 1q42.2TARBP1 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)
 GeneLoc gene densities for chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01M232593:
(about GC identifiers)
Start:
|
232,593,682 bp from pter |
End:
|
232,681,472 bp from pter |
Size:
|
87,791 bases |
Orientation:
|
minus strand |
RefSeq DNA sequence:- NC_000001.9 NT_004559.13
| Proteins for TARBP1
(According to
1UniProtKB,
and/or Ensembl,
Phosphorylation sites according to 2Phosphosite,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Enzo Life Sciences,
Abnova,
OriGene and/or,
Abcam,
Biochemical Assays by
Invitrogen,
Millipore,
R&D Systems,
Cell Signaling Technology, and/or
Enzo Life Sciences,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene,
Antibodies by Invitrogen,
Millipore,
Sigma-Aldrich,
R&D Systems,
Cell Signaling Technology,
Abcam,
Abnova, and/or
Novus Biologicals)
About This Section
| UniProtKB/Swiss-Prot: TARB1_HUMAN, Q13395 (See
protein sequence)Recommended Name: Probable methyltransferase TARBP1 Size: 1621 amino acids; 181675 Da
Subunit: Monomer and homodimer
PDB structures from and Proteopedia :2HA8 (3D)
 
Secondary accessions: Q9H581REFSEQ proteins: NP_005637.3
ENSEMBL proteins: ENSP00000040877
Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 
1 Gene Ontology (GO) cellular component term (links to tree view): About this table
Antibodies for TARBP1: Assays for TARBP1: | Protein
Domains/ Families for TARBP1(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| - Graphical View of Domain Structure for InterPro Entry Q13395
ProtoNet protein and cluster: Q13395 1 Blocks protein family: IPB001537 tRNA/rRNA methyltransferase (SpoU)
UniProtKB/Swiss-Prot: TARB1_HUMAN, Q13395Similarity: Belongs to the RNA methyltransferase trmH family | Gene Function for TARBP1
(According to MGI Jun 06 2009, UniProtKB,
IUBMB,and/or Genatlas,
shRNA from
OriGene,
Sigma-Aldrich, RNAi from
Sigma-Aldrich,
RNAi Products,
Clones, and
Q-PCR Products
from Invitrogen,
Millipore,
OriGene, and/or
Abnova,
siRNAs from
Applied Biosystems,
SYBR primers from OriGene,
Cell-based Assays from Millipore,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005646
Applied Biosystems Silencer® siRNAs for TARBP1
Sigma-Aldrich siRNA for TARBP1  Sigma-Aldrich shRNA for TARBP1  Explore Sigma-Aldrich super-pooled esiRNAs 
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_005646                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_005646                                  untagged cDNA clone in CMV expression vector: NM_005646 
Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_005646
UniProtKB/Swiss-Prot: TARB1_HUMAN, Q13395Function: 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 RNAEnzyme Number (IUBMB): EC 2.1.1.- 4 Gene Ontology (GO) molecular function terms (links to tree view): About this table | Pathways & Interactions for TARBP1
(Pathways according to Invitrogen
(maps by GeneGo),
Millipore,
Cell Signaling Technology,
Sigma-Aldrich,
KEGG
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Proteins Network according to
SABiosciences,
Interactions according to 1UniProtKB,
2MINT, and/or
3STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|
3 Interacting proteins for TARBP1 (ENSP000000408773) via UniProtKB, MINT, and/or STRINGAbout this table
2 Gene Ontology (GO) biological process terms (links to tree view): | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006357 | regulation of transcription from RNA polymerase II promoter |
TAS | 8846792 | | GO:0006396 | RNA processing |
IEA | -- | About this table
|
Drugs & Compounds for TARBP1(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
Sigma-Aldrich, Tocris Bioscience, and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB)
About This Section
|
Browse Tocris compounds for TARBP1
|
Transcripts for TARBP1(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank, RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
non coding RNAs according to
RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from Invitrogen,
Millipore, and/or
Abnova,
siRNAs from Applied Biosystems,
Sigma-Aldrich,
shRNA from
Sigma-Aldrich,
OriGene,
Tagged/untagged cDNA clones from
OriGene, Expression Assays from Applied Biosystems) About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005646
Sigma-Aldrich siRNA for TARBP1  Sigma-Aldrich shRNA for TARBP1  Explore Sigma-Aldrich super-pooled esiRNAs 
Applied Biosystems Silencer® siRNAs: NM_005646 REFSEQ mRNAs for TARBP1 gene: NM_005646.3
Applied Biosystems TaqMan ® Gene Expression Assays: NM_005646               OriGene GFP tagged cDNA clone in CMV expression vector: NM_005646                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_005646                                  untagged cDNA clone in CMV expression vector: NM_005646  Additional cDNA sequence: AK055044.1 BC016023.1 U38847.1 12 DOTS entries: DT.455861 DT.92427259 DT.95082796 DT.100785828 DT.102822591 DT.121402880 DT.92427256 DT.100748122 DT.101962808 DT.417658 DT.99998840 DT.92030521 24/191 AceView cDNA sequences (see all 191
):AI538671 AI354872 W05319 CD557271 BM989347 BM970587 CD656493 BM475098 AI623992 AU125388 BU186332 BM855317 F09534 BX110268 BC016023 AA319787 N75005 AW151935 CB133843 AI312769 AA367148 AL699826 AI538735 F11887
highest scoring ESTs for TARBP1:U38847 AA128016 AA173121 AA173224 AA300785 AA313376 AA314923 AA319787 AA322879 AA323115 Unigene Cluster for TARBP1: TAR (HIV-1) RNA binding protein 1 Hs.498115 [show with all ESTs]Unigene Representative Sequence: U38847
GeneLoc Exon Structure
5/7 Alternative Splicing Database (ASD) splice patterns (SP) for TARBP1 (see all 7
)
| 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: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
| ExUns: | 25a | · | 25b | ^ | 26 | ^ | 27 | ^ | 28 | ^ | 29 | ^ | 30a | · | 30b | ^ | 31 | ^ | 32a | · | 32b | ^ | 33a | · | 33b | · | 33c | · | 33d | |
| SP1: | - |   | |   | |   | - |   | - |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | - |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |
| SP3: | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | - |   | - |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | - |   | - |   | |   | |   | |   | |   | |   |
About this scheme
ECgene alternative splicing isoforms for TARBP1
1 Ensembl transcript including schematic representation: ENST00000040877
|
Expression for TARBP1
(Experimental results according to
1GeneNote
and GNF BioGPS,
probe sets-to-genes annotations according to
2GeneAnnot ,
3GeneTide ,
Sets of similar genes according to GeneDecks,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP,
plus additional links to
SOURCE, and/or
GNF
BioGPS, and/or
EXPOLDB, and/or
UniProtKB,
Expression Assays from
Applied Biosystems
)
About This Section
| TARBP1 expression in normal and diseased human tissues
Applied Biosystems TaqMan ® Gene Expression Assays for TARBP1
1 / 2 / 3 3 probe-sets matching TARBP1 gene Data from
(Publications) and GNF BioGPS About these images About these images
CGAP SAGE TAG: TGCCTTAAAC
SOURCE GeneReport for Unigene cluster: Hs.498115
Expression variation in blood from EXPOLDB for TARBP1 |
Orthologs for TARBP1
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
and/or
5MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase,
Gene Trees according to Ensembl)
About This Section
|
Orthologs for TARBP1 gene from 5/8 species (see all 8
)
| Organism |
Gene |
Locus |
Description |
Human Similarity |
NCBI accessions |
chimpanzee (Pan troglodytes) |
TARBP11 |
-- |
TAR (HIV-1) RNA binding protein 1 |
99.14(n) 98.89(a) |
457830 XM_514281.2 XP_514281.2 |
cow (Bos taurus) |
TARBP11 |
-- |
TAR (HIV-1) RNA binding protein 1 |
86.54(n) 84.99(a) |
535018 XM_614988.3 XP_614988.3 |
chicken (Gallus gallus) |
TARBP11 |
-- |
Tar (HIV-1) RNA binding protein 1 |
71.14(n) 68.79(a) |
421517 XM_419559.2 XP_419559.2 |
zebrafish (Danio rerio) |
LOC5663031 |
-- |
similar to TAR RNA binding protein 1 |
54.34(n) 48.91(a) |
566303 XM_001921839.1 XP_001921874.1 |
worm (Caenorhabditis elegans) |
T14B4.13 |
II(6736844-6741332) |
rRNA methylase |
47(a) |
-- |
About this table Species with no ortholog for TARBP1
ENSEMBL Gene Tree for TARBP1 | Paralogs for TARBP1(Paralogs according to 1HomoloGene and 2Ensembl, Pseudogenes according to 3Pseudogene.org) About This Section
| -- |
SNPs/Variants for TARBP1(According to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE, and
UniProtKB,
Linkage Disequilibrium by HapMap,
Genotyping Reagents from
Applied Biosystems)
About This Section
|
HapMap Linkage Disequilibrium images for TARBP1 (up to first 250kb)
|
Disorders & Mutations for TARBP1
(in which this Gene is Involved, According to
OMIM, UniProtKB,
Novoseek, PharmGKB,
Genatlas, GeneTests,
Blood group antigen gene mutations by BGMUT,
HGMD, GAD,
HuGE Navigator,
BCGD,
and/or TGDB.)
About This Section
|
OMIM: 605052
1 Novoseek disease relationship for TARBP1 gene
About this table
|
Medical News for TARBP1(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications for TARBP1 (in
PubMed.
Associations of this gene to articles via
1Novoseek,
2HGNC,
3Entrez Gene,
4UniProtKB/Swiss-Prot,
5UniProtKB/TrEMBL,
6GAD, and/or
7PharmGKB)
About This Section
| 10/34 PubMed articles for TARBP1 gene (see all 34
): |
Search for TARBP1
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing TARBP1
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
and/or
H-InvDB)
About This Section
|
| Other Databases showing TARBP1
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TARBP1(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL, Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot) About This Section
|
| About This Section
| --
| Services for TARBP1(Reagents available from Applied Biosystems, Antibodies and assays by Cell
Signaling Technology, Abcam, Novus Biologicals, Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich, Enzo Life Sciences, and/or Tocris Bioscience) About This Section
| 
 Products for TARBP1:

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Incremental update: 13 Oct 2009
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