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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TTTY1 Gene

RNA gene   GIFtS: 23
GCID: GC0YM009591

Testis-Specific Transcript, Y-Linked 1 (Non-Protein Coding)

(Previous names: testis-specific transcript, Y-linked 1)
  Search for TTTY1
at
MalaCards
 

Aliases
for TTTY1 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section
Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 10

Aliases
Testis-Specific Transcript, Y-Linked 1 (Non-Protein Coding)1 2     LINC000332
Long Intergenic Non-Protein Coding RNA 331     NCRNA000332
Non-Protein Coding RNA 331     TTY12
Testis-Specific Transcript, Y-Linked 11     

External Ids:    HGNC: 140221   Entrez Gene: 508582   Ensembl: ENSG000001298457   
ORGUL members:    fRNAdb10:FR194907      
NCBI13:AF000990    
NONCODE14:n371587      
RNAdb15:LIT1545    

Export aliases for TTTY1 gene to outside databases

Previous GC identifers: GC0YP006224 GC0YU900004 GC0YM009204 GC0YM010184


Summaries
for TTTY1 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
GeneCards Summary for TTTY1 Gene: 
TTTY1 (testis-specific transcript, Y-linked 1 (non-protein coding)) is an RNA gene, and is affiliated with the lncRNA class.

fRNAdb sequence ontology for TTTY1:
antisense_RNA - Antisense RNA is RNA that is transcribed from the coding, rather than the template, strand of DNA. It is therefore complementary to mRNA.

View fRNAdb secondary structures for TTTY1

Genomic Views
for TTTY1 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000024.9  NT_011878.9  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for TTTY1
         Other transcription factors

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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TTTY1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: Yp11.2   Ensembl cytogenetic band:  Yp11.2   HGNC cytogenetic band: Yp11.2

TTTY1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TTTY1 gene location

GeneLoc information about chromosome Y         GeneLoc Exon Structure

GeneLoc location for GC0YM009591:  view genomic region     (about GC identifiers)

Start:
 9,590,765 bp from pter      End:
 9,611,898 bp from pter
Size:
 21,134 bases      Orientation:
 minus strand

Proteins
for TTTY1 gene

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section
UniProtKB: --

Protein Domains /
Families
for TTTY1 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
 HGNC Gene Families: 
LNCRNA: Long non-coding RNAs

  --

Function
for TTTY1 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, genOway,
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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section
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Pathways & Interactions
for TTTY1 gene

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TTTY1

Drugs & Compounds
for TTTY1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
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Transcripts
for TTTY1 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
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Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section
 1 fRNAdb Secondary structure:


Unigene Cluster for TTTY1:

Testis-specific transcript, Y-linked 1 (non-protein coding)
Hs.584729
Unigene Representative Sequence: NR_001538
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000250805(lincRNA)(uc004fsm.2)
miRNA
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Additional mRNA sequence: 

AF000990.1 NR_001538.1 

2 DOTS entries:

DT.120654077  DT.40122104 

2 AceView cDNA sequences:

NR_001538 AF000990 

GeneLoc Exon Structure


Expression
for TTTY1 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

Expression evidence for TTTY1:RNAdb

TTTY1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
TTTY1 Expression
About this image


Genevestigator expression for TTTY1

SOURCE GeneReport for Unigene cluster: Hs.584729
    SABiosciences Custom PCR Arrays for TTTY1
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In Situ
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Orthologs
for TTTY1 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 TTTY1 (if available)
TreeFam Gene Tree for TTTY1 (if available)

Paralogs
for TTTY1 gene

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
  --

Genomic Variants
for TTTY1 gene

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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

8 SNPs in TTTY1 are shown    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance		Chr Y posSequence#AA
Chg		TypeMore#Allele
freq		PopTotal
sample		More
----------
rs3772234281,2
----9596719(+) AAAAAA/CAACCA 1 -- int10--------
rs3730028541,2
----9605068(+) GATTCC/TTTCCG 1 -- int10--------
rs3768659731,2
----9606528(+) CTTTGC/TGTATG 1 -- int10--------
rs3689896981,2
----9597544(+) GGCTGA/GCATTC 1 -- int10--------

HapMap Linkage Disequilibrium report for TTTY1 (9590765 - 9611898 bp)

Structural Variations
     Database of Genomic Variants (DGV) 3 variations for TTTY1:    About this table     
Variant IDTypeSubtypePubMed ID
nsv508820CNV Insertion20534489
dgv2496e1CNV Complex17122850
nsv7473OTHER Inversion18451855

SABiosciences Cancer Mutation PCR Assays
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Disorders / Diseases
for TTTY1 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
   --

Publications
for TTTY1 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 TTTY1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TTTY1)		    Utopia: connect your pdf to the dynamic
world of online information

  1. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PubMed id 12815422)1 Skaletsky H.... Page D.C. (2003)
  2. A potential role for CXCR3 chemokines in the response to ocular HSV infection. (PubMed id 12815542)1 Lundberg P. and Cantin E. (2003)
  3. Toward a complete human genome sequence. (PubMed id 9847074)1 Wilson R. (1998)
  4. Functional coherence of the human Y chromosome. (PubMed id 9381176)1 Lahn B.T. and Page D.C. (1997)
  5. (PubMed id 15608161)10 

External Searches for TTTY1 gene

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  
  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

Genome Databases showing TTTY1 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 50858 HGNC: 14022 AceView: TTTY1.1 Ensembl:ENSG00000129845 euGenes: HUgn50858
ECgene: TTTY1 H-InvDB: TTTY1

Other Databases showing TTTY1 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing TTTY1 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
NameDescription
PharmGKB entry for TTTY1 Pharmacogenomics, SNPs, Pathways

Intellectual Property
for TTTY1 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for TTTY1 gene:
Search GeneIP for patents involving TTTY1

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



Products
for TTTY1 gene

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About This Section

 
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