TRPT1 Gene
protein-coding GIFtS: 49
GCID: GC11M063991
|
|
tRNA phosphotransferase 1
| |
Aliases
for TRPT1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| TRNA Phosphotransferase 11 2 | | MGC111341 | | TRNA 2'-Phosphotransferase 12 | | TRNA Splicing 2' Phosphotransferase 12 | | EC 2.7.1.1603 |
Export aliases for TRPT1 gene to outside databasesPrevious GC identifers: GC00U911626 GC11M063748 GC11M060319 |
Summaries
for TRPT1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: TRPT1_HUMAN, Q86TN4Function: Catalyzes the last step of tRNA splicing, the transfer of the splice junction 2'-phosphate from ligated tRNAto NAD to produce ADP-ribose 1''-2'' cyclic phosphate (Probable)
Gene Wiki entry for TRPT1
|
Genomic Views
for TRPT1 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000011.9 NC_018922.1 NT_167190.1
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TRPT1 gene promoter:
ER-alpha Pax-5 CP2 SEF-1 (1) NF-kappaB1
Other transcription factors
Search SABiosciences Chromatin IP Primers for TRPT1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRPT1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 11q13.1 Ensembl cytogenetic band: 11q13.1 HGNC cytogenetic band: 11q13TRPT1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 11 GeneLoc Exon Structure GeneLoc location for GC11M063991: view genomic region
(about GC identifiers)
Start:
|
63,991,271 bp from pter |
End:
|
63,993,726 bp from pter |
Size:
|
2,456 bases |
Orientation:
|
minus strand |
|
Proteins
for TRPT1 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: TRPT1_HUMAN, Q86TN4 (See
protein sequence)Recommended Name: tRNA 2'-phosphotransferase 1 Size: 253 amino acids; 27742 Da
Secondary accessions: A8MU17 A8MYC9 F5H2B2 Q9BSB9Alternative splicing: 4 isoforms: Q86TN4-1 Q86TN4-2 Q86TN4-3 Q86TN4-4 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for TRPT1: NX_Q86TN4
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q86TN4
TRPT1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (6 alternative transcripts):
NP_001028850.2 NP_001153861.1 NP_001153862.1 NP_001153864.1 NP_001153865.1 NP_113660.1
ENSEMBL proteins: ENSP00000378051 ENSP00000439586 ENSP00000445292 ENSP00000314073 ENSP00000437741 ENSP00000442066 ENSP00000378050 ENSP00000438683
Human Recombinant Protein Products for TRPT1:
TRPT1 Antibody Products:
Assay Products for TRPT1: |
Protein
Domains /
Families
for TRPT1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TRPT1 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q86TN4ProtoNet protein and cluster: Q86TN4 1 Blocks protein family: IPB002745 Phosphotransferase KptA/Tpt1
UniProtKB/Swiss-Prot: TRPT1_HUMAN, Q86TN4Similarity: Belongs to the KptA/TPT1 family |
Function
for TRPT1 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase,
shRNA from
OriGene,
Sirion Biotech,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Sirion Biotech,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
Sirion Biotech,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Molecular Function:
UniProtKB/Swiss-Prot Summary: TRPT1_HUMAN, Q86TN4Function: Catalyzes the last step of tRNA splicing, the transfer of the splice junction 2'-phosphate from ligated tRNAto NAD to produce ADP-ribose 1''-2'' cyclic phosphate (Probable)Catalytic activity: 2'-phospho-[ligated tRNA] + NAD(+) = mature tRNA + ADP ribose 1'',2''-phosphate + nicotinamide +H(2)O Enzyme Number (IUBMB): EC 2.7.1.1601
Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0000215 | tRNA 2'-phosphotransferase activity |
IEA | -- | | GO:0008665 | 2'-phosphotransferase activity |
-- | -- | | GO:0016772 | transferase activity, transferring phosphorus-containing groups |
-- | -- |
TRPT1 for ontologies About GeneDecksing
Phenotypes:
1 GenomeRNAi human phenotype for TRPT1:
2 MGI mutant phenotypes (inferred from 1 allele ) (MGI details for Trpt1):
TRPT1 for phenotypes About GeneDecksing
Animal Models:
Mouse knock-out Trpt1tm1Dron for TRPT1
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRPT1 (see all 8)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRPT1 (see all 7)
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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Synthesis Service for TRPT1 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRPT1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRPT1 |
|
Pathways & Interactions
for TRPT1 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRPT1
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
5 Interacting proteins for TRPT1 (Q86TN42, 3 ENSP000003140734) via UniProtKB, MINT, STRING, and/or I2DAbout this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006388 | tRNA splicing, via endonucleolytic cleavage and ligation |
IEA | -- |
TRPT1 for ontologies About GeneDecksing
|
Drugs & Compounds
for TRPT1 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for TRPT1
2 HMDB Compounds for TRPT1 About this table
| Compound | Synonyms |
CAS
# | PubMed Ids |
|---|
| ADP-ribose 2'-phosphate | 2'-phosphoadenosine 5'-[3-(D-ribofuranosyl) dihydrogen diphosphate] (see all 3) | 26303-90-2 | -- | | NAD | 3-Carbamoyl-1-D-ribofuranosylpyridinium hydroxide 5'-ester with adenosine 5'-pyrophosphate (see all 28) | 53-84-9 | -- |
Search CenterWatch for drugs/clinical trials and news about TRPT1
|
Transcripts
for TRPT1 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
Sirion Biotech,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for TRPT1 gene (6 alternative transcripts): NM_001033678.3 NM_001160389.1 NM_001160390.1 NM_001160392.1 NM_001160393.1 NM_031472.3 Unigene Cluster for TRPT1: TRNA phosphotransferase 1 Hs.326586 [show with all ESTs]Unigene Representative Sequence: BM90701916 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000394547 ENST00000546133 ENST00000536158 ENST00000539436 ENST00000544286
ENST00000537907 ENST00000541928 ENST00000317459 ENST00000546089 ENST00000539595
ENST00000536234 ENST00000545812 ENST00000542040 ENST00000540472 ENST00000394546(uc010rnc.2 uc010rnd.2 uc001nyo.3 uc010rnf.2 uc001nyn.3)
ENST00000541278(uc010rne.2)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRPT1 (see all 8)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRPT1 (see all 7)
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 6): TRPT1 (NM_001160393) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TRPT1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRPT1 |
Additional cDNA sequence: AY211494.1 BC005133.2 13 DOTS entries: DT.100830225 DT.456276 DT.101964595 DT.99969517 DT.100792951 DT.456277 DT.100808071 DT.120757751 DT.120757796 DT.95335557 DT.100775663 DT.95081685 DT.95081690 24/153 AceView cDNA sequences (see all 153): AI865582 BF063730 AI571406 AI198728 BM982538 AW328431 AW105702 BM054678 BX448709 CR591349 AW368800 BQ010394 AI923864 AI087861 BX373257 BM673765 BU728496 AI740509 CA306231 AW328432 CR599436 CK904561 F21628 BQ721222
GeneLoc Exon Structure
5/11 Alternative Splicing Database (ASD) splice patterns (SP) for TRPT1 (see all 11) About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2a | · | 2b | · | 2c | ^ | 3 | ^ | 4a | · | 4b | ^ | 5 | ^ | 6a | · | 6b | ^ | 7 | ^ | 8 | ^ | 9a | · | 9b | ^ | 10a | · | 10b | · | 10c | · | 10d |
|---|
|
| SP1: | | | | | | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | - | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | - | | - | | - | | - | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | - | | - | | | | | | | | | | - | | - | | | | | | | | | |
ECgene alternative splicing isoforms for TRPT1
|
Expression
for TRPT1 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| TRPT1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CGGTCCCGTT
About this image
See TRPT1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TRPT1
SOURCE GeneReport for Unigene cluster: Hs.326586
UniProtKB/Swiss-Prot: TRPT1_HUMAN, Q86TN4Tissue specificity: Widely expressed. Weakly or not expressed in lung, spleen, small intestine and peripheral bloodleukocytes
SABiosciences Custom PCR Arrays for TRPT1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRPT1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat TRPT1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRPT1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRPT1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRPT1 |
Orthologs
for TRPT1 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the last universal common ancestor (LUCA).
Orthologs for TRPT1 gene from 7/24 species (see all 24) About this table
ENSEMBL Gene Tree for TRPT1 (if available)
TreeFam Gene Tree for TRPT1 (if available) |
Paralogs
for TRPT1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for TRPT1 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 11 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TRPT1 (63991271 - 63993726 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for TRPT1: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRPT1 |
|
Disorders
/ Diseases
for TRPT1 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
 TRPT1 for disorders About MalaCards
TRPT1 for disorders About GeneDecksing
OMIM gene information: 610470
OMIM disorders: --
Export disorders for TRPT1 gene to outside databases
|
Publications
for TRPT1 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for TRPT1 gene, integrated from 9 sources (see all 14):
(articles sorted by number of sources associating them with TRPT1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- A human homolog of the yeast gene encoding tRNA 2'- phosphotransferase: cloning, characterization and complementation analysis. (PubMed id 14504659)1, 2, 3 Hu Q.-D.... Li Y.-Y. (2003)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Genome-wide association study of the child behavior c hecklist dysregulation profile. (PubMed id 21784300)1 Mick E....Faraone S.V. (2011)
- Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
- Comparison of substrate specificity of the ubiquitin ligases Nedd4 and Nedd4-2 using proteome arrays. (PubMed id 19953087)1 Persaud A....Rotin D. (2009)
- Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
- hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
- Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
|
External Searches for TRPT1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing TRPT1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TRPT1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TRPT1 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for TRPT1 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for TRPT1 gene:
Search GeneIP for patents involving TRPT1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TRPT1 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
About This Section
|
 | |
 | |
 |
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 |
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| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRPT1 |
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