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CCDC169-SOHLH2 Gene

protein-coding   GIFtS: 17
GCID: GC13M036745

CCDC169-SOHLH2 Readthrough

(Previous name: C13orf38-SOHLH2 readthrough)
(Previous symbol: C13orf38-SOHLH2)
  Search for CCDC169-SOHLH2
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
CCDC169-SOHLH2 Readthrough1 2
C13orf38-SOHLH21 2
C13orf38-SOHLH2 Readthrough1
CCDC169-SOHLH2 Protein2

External Ids:    HGNC: 388661   Entrez Gene: 1005267612   Ensembl: ENSG000002507097   

Export aliases for CCDC169-SOHLH2 gene to outside databases

Previous GC identifer: GC13U900863


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CCDC169-SOHLH2 Gene:
This locus represents naturally occurring read-through transcription between the neighboring C13orf38 (chromosome
13 open reading frame 38) and SOHLH2 (spermatogenesis and oogenesis specific basic helix-loop-helix 2) genes. The
read-through transcript encodes a fusion protein that shares sequence identity with the products of each
individual gene. (provided by RefSeq, Nov 2010)

GeneCards Summary for CCDC169-SOHLH2 Gene:
CCDC169-SOHLH2 (CCDC169-SOHLH2 readthrough) is a protein-coding gene. An important paralog of this gene is SOHLH2.




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for CCDC169-SOHLH2
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CCDC169-SOHLH2


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

Entrez Gene cytogenetic band: 13q   Ensembl cytogenetic band:  13q13.3   HGNC cytogenetic band: 13q13.3

CCDC169-SOHLH2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCDC169-SOHLH2 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13M036745:  view genomic region     (about GC identifiers)

Start:
36,742,345 bp from pter      End:
36,871,992 bp from pter
Size:
129,648 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB: --
REFSEQ proteins: NP_001185839.1  
ENSEMBL proteins: 
 ENSP00000421868  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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(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,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0046983protein dimerization activity ----
     
Find genes that share ontologies with CCDC169-SOHLH2           About GenesLikeMe


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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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Interactions:

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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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(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,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for CCDC169-SOHLH2 gene: 
NM_001198910.1  

1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000511166
miRNA
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GeneLoc Exon Structure


(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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CCDC169-SOHLH2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
CCDC169-SOHLH2 Expression
About this image

CCDC169-SOHLH2 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
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(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)
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This gene was present in the common ancestor of human and mouse.

Orthologs for CCDC169-SOHLH2 gene from Selected species (see all 7)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Sohlh21 spermatogenesis and oogenesis specific basic helix-loop-helix more 68.65(n)
52.72(a)
  74434  NM_028937.3  NP_083213.2 


ENSEMBL Gene Tree for CCDC169-SOHLH2 (if available)
TreeFam Gene Tree for CCDC169-SOHLH2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for CCDC169-SOHLH2 gene
SOHLH22  

Find genes that share paralogs with CCDC169-SOHLH2           About GenesLikeMe



(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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for CCDC169-SOHLH2 (see all 217)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 13 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1472787081,2
--36790833(+) CCCAGA/GGAAGA 1 -- int10--------
rs1880748171,2
--36790846(+) TTGCCA/CTCCAA 1 -- int10--------
rs740452481,2
C--36790868(+) CAATGC/TCTGAA 1 -- int12Minor allele frequency- T:0.05WA 120
rs740452491,2
C,F--36790950(+) TCCTAC/TAATGC 1 -- int12Minor allele frequency- T:0.06WA 120
rs1926475671,2
--36790968(+) AGCGCC/TCTACA 1 -- int10--------
rs95316031,2
C,F,A,H--36791110(+) CTTGTG/ATAGTG 1 -- int114Minor allele frequency- A:0.49NA WA CSA EA 516
rs1404702041,2
--36791149(+) GGAAGA/CAATAT 1 -- int10--------
rs95316041,2
C,F,A,H--36791160(+) TACACA/GCACCA 1 -- int113Minor allele frequency- G:0.36NS EA NA WA CSA 790
rs1845922751,2
--36791197(+) CAGAAC/GTGGTG 1 -- int10--------
rs740452501,2
C,F--36791252(+) TAATCG/ATGTCC 1 -- int11Minor allele frequency- A:0.50WA 2

HapMap Linkage Disequilibrium report for CCDC169-SOHLH2 (36742345 - 36871992 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for CCDC169-SOHLH2 (see all 13):    About this table    
Variant IDTypeSubtypePubMed ID
esv1749604CNV Deletion17803354
esv2666917CNV Deletion23128226
esv2747267CNV Deletion23290073
esv2747266CNV Deletion23290073
esv2747265CNV Deletion23290073
esv2095309CNV Deletion18987734
esv2747263CNV Deletion23290073
esv2671981CNV Deletion23128226
nsv525432CNV Loss19592680
nsv899992CNV Loss21882294

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(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.)
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(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)
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PubMed articles for CCDC169-SOHLH2 gene integrated from 10 sources:
(articles sorted by number of sources associating them with CCDC169-SOHLH2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The genetic architecture of economic and political preferences. (PubMed id 22566634)1 Benjamin D.J....Visscher P.M. (Proc. Natl. Acad. Sci. U.S.A. 2012)
  2. Global identification of modular cullin-RING ligase substrates. (PubMed id 21963094)1 Emanuele M.J....Elledge S.J. (Cell 2011)
  3. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (PLoS ONE 2010)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 100526761 HGNC: 38866 Ensembl:ENSG00000250709 euGenes: HUgn100526761 ECgene: CCDC169-SOHLH2
H-InvDB: CCDC169-SOHLH2

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for CCDC169-SOHLH2 gene:
Search GeneIP for patents involving CCDC169-SOHLH2

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



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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