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

TTTY13 Gene

RNA gene   GIFtS: 30
GCID: GC0YM023745

testis-specific transcript, Y-linked 13 (non-protein coding)

(Previous names: testis-specific transcript, Y-linked 13 )
  Search for TTTY13
in
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for TTTY13    

Aliases
for TTTY13 gene

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

Quality score for this RNA gene is 10

Aliases
Testis-Specific Transcript, Y-Linked 13 (Non-Protein Coding)1 2
TTY131 2 3
NCRNA001361 2
Testis-Specific Transcript, Y-Linked 131

External Ids:    HGNC: 184941   Entrez Gene: 838682   Ensembl: ENSG000001849917   UniProtKB: Q9BZ973   
ORGUL members:    fRNAdb10:FR111973      
NCBI:AF332242    
NONCODE:n371606    
RNAdb:LIT1113    

Export aliases for TTTY13 gene to outside databases

Previous GC identifers: GC0YM022900 GC0YM022590 GC0YP009146 GC0YM022154 GC0YM017288


Summaries
for TTTY13 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
fRNAdb sequence ontology for TTTY13:
mature_transcript - A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified.

View fRNAdb secondary structures for TTTY13

Genomic Views
for TTTY13 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_000024.9  NT_011875.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TTTY13 gene promoter:
         FAC1   S8   IRF-2   Pbx1a   MyoD   Chx10   Cart-1   LyF-1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TTTY13


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

Entrez Gene cytogenetic band: Yq11.223   Ensembl cytogenetic band:  Yq11.223   HGNC cytogenetic band: Yp11.2

TTTY13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TTTY13 gene location

GeneLoc information about chromosome Y         GeneLoc Exon Structure

GeneLoc location for GC0YM023745:  view genomic region     (about GC identifiers)

Start:
 23,745,486 bp from pter      End:
 23,756,552 bp from pter
Size:
 11,067 bases      Orientation:
 minus strand

Proteins
for TTTY13 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: TTY13_HUMAN, Q9BZ97 (See protein sequence)
Recommended Name: Putative transcript Y 13 protein  
Size: 58 amino acids; 6256 Da
Subcellular location: Membrane; Single-pass membrane protein (By similarity)
Caution: Could be the product of a pseudogene

Explore the universe of human proteins at neXtProt for TTTY13: NX_Q9BZ97

TTTY13 Protein expression data from MOPED and PaxDb: --

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Protein Domains /
Families
for TTTY13 gene

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

ProtoNet protein and cluster: Q9BZ97


Function
for TTTY13 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
miRNA
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Inhib. RNA
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In Situ Assay
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1 GenomeRNAi human phenotype for TTTY13:
 Synthetic lethal with Ras 


Pathways & Interactions
for TTTY13 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 TTTY13

Drugs & Compounds
for TTTY13 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 Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for TTTY13
Search CenterWatch for drugs/clinical trials and news about TTTY13 

Transcripts
for TTTY13 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
 1 fRNAdb Secondary structure:


Unigene Cluster for TTTY13:

Testis-specific transcript, Y-linked 13 (non-protein coding)
Hs.615432
Unigene Representative Sequence: AF332242
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000330337(lincRNA)(uc004fus.3)

miRNA
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Inhib. RNA
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Clone
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Primer
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Additional cDNA sequence: 

AF332242.1 NR_001537.1 

1 DOTS entry:

DT.97762591 

2 AceView cDNA sequences:

NR_001537 AF332242 

GeneLoc Exon Structure


Expression
for TTTY13 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 TTTY13:RNAdb

TTTY13 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TGCGCAGCTG

Microarray
RNAseq (Illumina Body Map)
(100×FPKM)½
SAGE (Serial Analysis of Gene Expression)
About this image
Genevestigator expression for TTTY13

SOURCE GeneReport for Unigene cluster: Hs.615432
    SABiosciences Custom PCR Arrays for TTTY13
Primer
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In Situ
Assay Products: 
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Orthologs
for TTTY13 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 TTTY13 (if available)
TreeFam Gene Tree for TTTY13 (if available) 

Paralogs
for TTTY13 gene

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

Genomic Variants
for TTTY13 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

10/42 NCBI SNPs in TTTY13 are shown (see all 42)     About this table
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance		Chr Y posSequence#AA
Chg		TypeMore#Allele
freq		PopTotal
sample		More
----------
rs49985961,2
C--23749157(+) CTTGGG/TCTGCA 1 -- int11Minor allele frequency- T:0.00NA 2
rs38599971,2
C,H--23749182(-) TCTACA/CGAAAA 1 -- int15Minor allele frequency- C:0.00NS EA NA 214
rs20855301,2
C--23749192(-) GGATTC/AAGGAT 1 -- int11Minor allele frequency- A:0.00NA 2
rs26083811,2
O--23758128(+) TTTCCC/AGCGTC 1 -- us2k1 tfbs31Minor allele frequency- A:0.00NA 2
rs26083821,2
C--23758186(+) GGAGAC/AGACCC 1 -- us2k11Minor allele frequency- A:0.00NA 2
rs1125152041,2
----23754449(+) TGAGGA/GTATAA 1 -- int10--------
rs721703981,2
----23749562(+) AATAA-/ATATAAA 1 -- int10--------
rs722875441,2
----23754206(+) ACTCT-/TCTAGAAA 1 -- int10--------
rs1127851941,2
----23756986(+) CCTGGC/TGTTCA 1 -- us2k10--------
rs726150561,2
----23757974(+) GGGCCC/TGGCCA 1 -- us2k10--------

HapMap Linkage Disequilibrium report for TTTY13 (23745486 - 23756552 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 3 variations for TTTY13
     3 CNVs: 0832 31589 4184
Human Gene Mutation Database (HGMD): TTTY13

SABiosciences Cancer Mutation PCR Assays
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Disorders / Diseases
for TTTY13 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
TTTY13 for disorders           About MalaCards

TTTY13 for disorders           About GeneDecksing


Export disorders for TTTY13 gene to outside databases

Publications
for TTTY13 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 TTTY13 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TTTY13)		    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, 2 Skaletsky H.... Page D.C. (2003)
  2. (PubMed id 15608161)10 

External Searches for TTTY13 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 TTTY13 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 83868 HGNC: 18494 AceView: TTTY13 Ensembl:ENSG00000184991 euGenes: HUgn83868
ECgene: TTTY13 H-InvDB: TTTY13

Other Databases showing TTTY13 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing TTTY13 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 TTTY13 Pharmacogenomics, SNPs, Pathways

Intellectual Property
for TTTY13 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for TTTY13 gene:
Search GeneIP for patents involving TTTY13

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



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