TRUB1 Gene
protein-coding GIFtS: 51
GCID: GC10P116687
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|
TruB pseudouridine (psi) synthase homolog 1 (E. coli)
| |
Aliases
for TRUB1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| TruB Pseudouridine (Psi) Synthase Homolog 1 (E. Coli)1 2 | | PUS41 2 3 5 | | Probable TRNA Pseudouridine Synthase 12 | | EC 5.4.99.-3 | | EC 5.4.998 |
Export aliases for TRUB1 gene to outside databasesPrevious GC identifers: GC10P115616 GC10P115941 GC10P116829 GC10P116362 GC10P110325 |
Summaries
for TRUB1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for TRUB1:
Pseudouridine is an abundant component of rRNAs and tRNAs and is enzymatically generated by isomerization of uridine bypseudouridine synthase (Zucchini et al., 2003 (PubMed 12736709)).(supplied by OMIM, Mar 2008)
UniProtKB/Swiss-Prot: TRUB1_HUMAN, Q8WWH5Function: May be responsible for synthesis of pseudouridine from uracil in transfer RNAs (By similarity)
|
Genomic Views
for TRUB1 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_000010.10 NC_018921.1 NT_030059.13
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TRUB1 gene promoter:
COUP-TF1 RP58 COUP HNF-4alpha2 Nkx2-5 HNF-4alpha1 PPAR-gamma1 COUP-TF STAT3 PPAR-gamma2
Other transcription factors
Search SABiosciences Chromatin IP Primers for TRUB1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRUB1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 10q25.3 Ensembl cytogenetic band: 10q25.3 HGNC cytogenetic band: 10q25.3TRUB1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 10 GeneLoc Exon Structure GeneLoc location for GC10P116687: view genomic region
(about GC identifiers)
Start:
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116,697,952 bp from pter |
End:
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116,737,439 bp from pter |
Size:
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39,488 bases |
Orientation:
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plus strand |
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Proteins
for TRUB1 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: TRUB1_HUMAN, Q8WWH5 (See
protein sequence)Recommended Name: Probable tRNA pseudouridine synthase 1 Size: 349 amino acids; 37253 Da
Secondary accessions: B2R716 Q53ES2Explore the universe of human proteins at neXtProt for TRUB1: NX_Q8WWH5
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8WWH5
4/5 DME Specific Peptides for TRUB1 (Q8WWH5) (see all 5)
TRUB1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_631908.1
ENSEMBL proteins: ENSP00000298746
Human Recombinant Protein Products:
TRUB1 Antibody Products:
Assay Products for TRUB1: |
Protein
Domains /
Families
for TRUB1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TRUB1 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8WWH5ProtoNet protein and cluster: Q8WWH5 1 Blocks protein family: IPB002501 Pseudouridylate synthase TruB
UniProtKB/Swiss-Prot: TRUB1_HUMAN, Q8WWH5Similarity: Belongs to the pseudouridine synthase TruB family |
Function
for TRUB1 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: TRUB1_HUMAN, Q8WWH5Function: May be responsible for synthesis of pseudouridine from uracil in transfer RNAs (By similarity)Catalytic activity: tRNA uridine = tRNA pseudouridineEnzyme Numbers (IUBMB): EC 5.4.992 EC 5.4.99.-1
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 TRUB1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRUB1
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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| |  | GenScript: all cDNA clones in your preferred vector: TRUB1 (NM_139169) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TRUB1 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRUB1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRUB1 |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003723 | RNA binding |
IEA | -- | | GO:0009982 | pseudouridine synthase activity |
IEA | -- |
TRUB1 for ontologies About GeneDecksing
|
Pathways & Interactions
for TRUB1 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 TRUB1
STRING Interaction
Network Preview (showing 5 interactants - click image to see 7)
5/763 Interacting proteins for TRUB1 (Q8WWH52, 3 ENSP000002987464) via UniProtKB, MINT, STRING, and/or I2D (see all 763)About this table
Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0001522 | pseudouridine synthesis |
IEA | -- | | GO:0008033 | tRNA processing |
IEA | -- |
TRUB1 for ontologies About GeneDecksing
|
Drugs & Compounds
for TRUB1 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 TRUB1
1 HMDB Compound for TRUB1 About this table
Search CenterWatch for drugs/clinical trials and news about TRUB1
|
Transcripts
for TRUB1 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,
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 TRUB1 gene: NM_139169.4 Unigene Cluster for TRUB1: TruB pseudouridine (psi) synthase homolog 1 (E. coli) Hs.21187 [show with all ESTs]Unigene Representative Sequence: BC0306012 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000298746(uc010qsl.2 uc001lcd.3) ENST00000485065
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRUB1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRUB1
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: TRUB1 (NM_139169) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TRUB1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRUB1 |
Additional cDNA sequence: AF448144.1 AK026721.1 AK125554.1 AK223567.1 AK302800.1 AK312805.1 BC030601.2 BX648443.1 BX648479.1 BX648709.1 7 DOTS entries: DT.100718783 DT.121265035 DT.97809515 DT.101982095 DT.215681 DT.100751204 DT.97815200 24/111 AceView cDNA sequences (see all 111): AI304430 AA781326 BQ961439 CA429869 BI826861 N23387 AA984328 Z39556 AI763171 AI208778 AA806991 BX091117 F04016 BX648443 AF448144 BX494667 AA243303 AA927829 AI368111 AA410186 AW193222 BX955486 BX648479 BM970359
GeneLoc Exon Structure
4 Alternative Splicing Database (ASD) splice patterns (SP) for TRUB1 About this scheme
| ExUns: | 1a | · | 1b | · | 1c | · | 1d | ^ | 2 | ^ | 3 | ^ | 4a | · | 4b | ^ | 5 | ^ | 6 | ^ | 7a | · | 7b | ^ | 8 |
|---|
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| SP1: | | | | | | | | | | | | | | | - | | | | | | | | | | | | |
| SP2: | | | | | | | | | - | | | | | | - | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | - | | - | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for TRUB1
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Expression
for TRUB1 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
| TRUB1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ATGCATTAAC
About this image
See TRUB1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TRUB1
SOURCE GeneReport for Unigene cluster: Hs.21187
UniProtKB/Swiss-Prot: TRUB1_HUMAN, Q8WWH5Tissue specificity: Highly expressed in heart, skeletal muscle and liver. Expressed at lower levels in lung, smallintestine, kidney and spleen
SABiosciences Custom PCR Arrays for TRUB1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRUB1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat TRUB1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRUB1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRUB1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRUB1 |
Orthologs
for TRUB1 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 TRUB1 gene from 10/35 species (see all 35) About this table
ENSEMBL Gene Tree for TRUB1 (if available)
TreeFam Gene Tree for TRUB1 (if available) |
Paralogs
for TRUB1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for TRUB1 gene
- TRUB22
TRUB1 for paralogs About GeneDecksing
|
Genomic Variants
for TRUB1 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 10 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TRUB1 (116697952 - 116737439 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for TRUB1: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRUB1 |
|
Disorders
/ Diseases
for TRUB1 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
|
TRUB1 for disorders About GeneDecksing
OMIM gene information: 610726
OMIM disorders: --
8  diseases for TRUB1: About MalaCardsdyskeratosis congenita-1 dyskeratosis congenita dyskeratosis alzheimer's disease
pneumonia tuberculosis malaria mycobacterium tuberculosis
1 disease from the University of Copenhagen DISEASES database for TRUB1:Dyskeratosis congenita Human Genome Epidemiology (HuGE) Navigator: TRUB1 (1 document)
Export disorders for TRUB1 gene to outside databases
|
Publications
for TRUB1 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 TRUB1 gene, integrated from 9 sources (see all 14):
(articles sorted by number of sources associating them with TRUB1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The human TruB family of pseudouridine synthase genes, including the Dyskeratosis Congenita 1 gene and the novel member TRUB1. (PubMed id 12736709)1, 2, 3, 9 Zucchini C.... Valvassori L. (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)
- The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)1, 2 Deloukas P.... Rogers J. (2004)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (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)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
- Dynamics of cullin-RING ubiquitin ligase network revea led by systematic quantitative proteomics. (PubMed id 21145461)1 Bennett E.J....Harper J.W. (2010)
- System-wide changes to SUMO modifications in response to heat shock. (PubMed id 19471022)1 Golebiowski F....Hay R.T. (2009)
- The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
|
External Searches for TRUB1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing TRUB1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TRUB1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TRUB1 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 TRUB1 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for TRUB1 gene:
Search GeneIP for patents involving TRUB1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TRUB1 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, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, 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
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for TRUB1 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TRUB1 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRUB1 | | | OriGene Protein Over-expression Lysate for TRUB1 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for TRUB1 | | OriGene 3'-UTR Clone for TRUB1 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRUB1 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRUB1 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | OriGene Purified Protein for TRUB1 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for TRUB1 | | OriGene Custom Protein Services for TRUB1 | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat TRUB1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRUB1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRUB1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRUB1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRUB1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRUB1 |
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| | | | Search Tocris compounds for TRUB1 |
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 | | | TRUB1 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRUB1 |
|  |  |  | | | | Search ThermoFisher Antibodies for TRUB1 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRUB1 |
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