TYW1B Gene
protein-coding GIFtS: 35
GCID: GC07M072023
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tRNA-yW synthesizing protein 1 homolog B (S. cerevisiae)(Previous name: tRNA-yW synthesizing protein 1 homolog B (non-protein coding)...)
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Aliases
for TYW1B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| TRNA-YW Synthesizing Protein 1 Homolog B (S. Cerevisiae)1 2 | | Radical S-Adenosyl Methionine And Flavodoxin Domain-Containing Protein 22 3 | | RSAFD21 2 3 | | MGC873151 | | LINC000691 2 | | Long Intergenic Non-Protein Coding RNA 692 | | NCRNA000691 2 | | Radical S-Adenosyl Methionine And Flavodoxin Domains 12 | | TRNA-YW Synthesizing Protein 1 Homolog B (Non-Protein Coding)1 2 | | TRNA Wybutosine-Synthesizing Protein 1 Homolog B2 |
Export aliases for TYW1B gene to outside databasesPrevious GC identifers: GC07M071680 GC07M071683 GC07M071686 GC07M068192 |
Summaries
for TYW1B 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 TYW1B:
Wybutosine (yW) is a hypermodified guanosine found in phenylalanine tRNA adjacent to the anticodon that stabilizescodon-anticodon interactions in the ribosome. In yeast, the homolog of this gene is essential for the synthesis ofwybutosine (yW). The human genome contains two closely related genes that putatively function in wybutosine synthesis.The open reading frame of this locus is disrupted in some individuals. Thus, this locus appears to be an evolvingpseudogene, but may still be functional in some members of the population. Multiple transcript variants encodingdifferent isoforms have been found for this gene. (provided by RefSeq, Mar 2009)
UniProtKB/Swiss-Prot: TYW1B_HUMAN, Q6NUM6Function: Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with atricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA (By similarity)
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Genomic Views
for TYW1B 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_000007.13 NC_018918.1 NT_007933.15 NT_079593.2
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TYW1B gene promoter:
SRF Elk-1 SRF (504 AA) RREB-1 FOXO3 Evi-1 RORalpha1 STAT3 NF-Y CBF(2)
Other transcription factors
Search SABiosciences Chromatin IP Primers for TYW1B
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TYW1B |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 7q11.23 Ensembl cytogenetic band: 7q11.23 HGNC cytogenetic band: 7q11.23TYW1B Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 7 GeneLoc Exon Structure GeneLoc location for GC07M072023: view genomic region
(about GC identifiers)
Start:
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72,023,729 bp from pter |
End:
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72,298,813 bp from pter |
Size:
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275,085 bases |
Orientation:
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minus strand |
1 alternative location:
| Chr7-,CRA_TCAG 71,372,314-71,631,635 |
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Proteins
for TYW1B 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: TYW1B_HUMAN, Q6NUM6 (See
protein sequence)Recommended Name: tRNA wybutosine-synthesizing protein 1 homolog B Size: 668 amino acids; 76946 Da
Cofactor: Binds 1 4Fe-4S cluster. The cluster is coordinated with 3 cysteines and an exchangeableS-adenosyl-L-methionine (By similarity)
Secondary accessions: A6NG09 Q3KQX2Explore the universe of human proteins at neXtProt for TYW1B: NX_Q6NUM6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q6NUM6
TYW1B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001138912.1 NP_001138913.1
Human Recombinant Protein Products:
TYW1B Antibody Products:
Assay Products for TYW1B: |
Protein
Domains /
Families
for TYW1B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TYW1B for domains About GeneDecksing
5 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q6NUM6ProtoNet protein and cluster: Q6NUM6 3 Blocks protein families: IPB001094 Flavodoxin signature IPB008254 Flavodoxin/nitric oxide synthase IPB013917 Wyosine base formation
UniProtKB/Swiss-Prot: TYW1B_HUMAN, Q6NUM6Similarity: Belongs to the TYW1 familySimilarity: Contains 1 flavodoxin-like domain |
Function
for TYW1B 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: TYW1B_HUMAN, Q6NUM6Function: Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with atricyclic base found at the 3'-position adjacent to the anticodon of eukaryotic phenylalanine tRNA (By similarity)
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TYW1B (see all 2)
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TYW1B |
Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view): About this table
TYW1B for ontologies About GeneDecksing
|
Pathways & Interactions
for TYW1B 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
|
UniProtKB/Swiss-Prot: TYW1B_HUMAN, Q6NUM6Pathway: tRNA modification; wybutosine-tRNA(Phe) biosynthesisInteractions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TYW1B
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:0008033 | tRNA processing |
IEA | -- |
TYW1B for ontologies About GeneDecksing
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Drugs & Compounds
for TYW1B 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 TYW1B
2 HMDB Compounds for TYW1B About this table
Search CenterWatch for drugs/clinical trials and news about TYW1B
|
Transcripts
for TYW1B 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 TYW1B gene (2 alternative transcripts): NM_001145440.1 NM_001145441.1 Unigene Cluster for TYW1B: TRNA-yW synthesizing protein 1 homolog B (S. cerevisiae) Hs.488614 [show with all ESTs]Unigene Representative Sequence: NM_0011454405 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000435769(uc011kej.2) ENST00000437915(uc011kek.1) ENST00000438125(uc011keh.1)
ENST00000343721(uc011kei.2) ENST00000438904
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TYW1B (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TYW1B (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): TYW1B (NM_001145440) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TYW1B | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TYW1B |
Additional cDNA sequence: AK294319.1 AK294401.1 AK301471.1 AK303225.1 AK309556.1 AK310913.1 BC068520.1 BC106019.1 11 DOTS entries: DT.92435437 DT.100696287 DT.121057989 DT.91847904 DT.100740702 DT.121058209 DT.100828040 DT.121057955 DT.121116345 DT.316409 DT.99933881 24/43 AceView cDNA sequences (see all 43): AA938459 AI276524 AA928462 CB155939 BX360726 AW207193 AI128247 BF438068 BF438216 F24917 AI417198 BG699940 AI147587 BC068520 BI764278 AI039740 BM924629 BG284505 F36477 BF438126 AI984113 CB163624 BX334333 AI979177
GeneLoc Exon Structure
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Expression
for TYW1B 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
| TYW1B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See TYW1B Protein Expression from SPIRE MOPED and PaxDB
SOURCE GeneReport for Unigene cluster: Hs.488614
SABiosciences Custom PCR Arrays for TYW1B
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TYW1B
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat TYW1B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TYW1B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TYW1B | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TYW1B |
Orthologs
for TYW1B 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
|
--
ENSEMBL Gene Tree for TYW1B (if available)
TreeFam Gene Tree for TYW1B (if available) |
Paralogs
for TYW1B gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for TYW1B 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 7 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TYW1B (72023729 - 72273729 bp, first 250kb of TYW1B)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 27 variations for TYW1B
15/27 CNVs (see all 27): 82031 82032 6556 94604 32913 36705 44318 94605 7644 82029 37759 82028 6555 99989 64858 | SABiosciences Cancer Mutation PCR Assays |
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Disorders
/ Diseases
for TYW1B 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
|
TYW1B for disorders About GeneDecksing
1  disease for TYW1B: About MalaCardsnoma
Human Genome Epidemiology (HuGE) Navigator: TYW1B (1 document)
Export disorders for TYW1B gene to outside databases
|
Publications
for TYW1B 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 TYW1B gene integrated from 9 sources:
(articles sorted by number of sources associating them with TYW1B) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- 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)
- Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
- Biological, clinical and population relevance of 95 l oci for blood lipids. (PubMed id 20686565)1 Teslovich T.M....Kathiresan S. (2010)
- 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)
- Ribonucleome analysis identified enzyme genes responsible for wybutosine synthesis. (PubMed id 17150819)1 Noma A. and Suzuki T. (2006)
- Discovery of a gene family critical to wyosine base formation in a subset of phenylalanine-specific transfer RNAs. (PubMed id 16162496)1 Waas W.F....Schimmel P. (2005)
- The DNA sequence of human chromosome 7. (PubMed id 12853948)2 Hillier L.W.... Wilson R.K. (2003)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
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External Searches for TYW1B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing TYW1B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TYW1B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TYW1B 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 TYW1B | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for TYW1B gene:
Search GeneIP for patents involving TYW1B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TYW1B 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
|
 | |
 | |
 |
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 | | | TYW1B Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TYW1B |
|  |  |  | | | | Search ThermoFisher Antibodies for TYW1B |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TYW1B |
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