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TCP10L2 Gene

protein-coding   GIFtS: 29
GCID: GC06P167559

T-Complex 10-Like 2

(Previous name: t-complex 10-like 2 (mouse))
  See related disease
at  

(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
T-Complex 10-Like 21 2
T-Complex 10-Like Protein 22 3
T-Complex 10-Like 2 (Mouse)1
bA517H2.32
Putative T-Complex Protein 10A Homolog 22

External Ids:    HGNC: 212541   Entrez Gene: 4012852   Ensembl: ENSG000001669847   UniProtKB: B9ZVM93   

Export aliases for TCP10L2 gene to outside databases

Previous GC identifers: GC06P167493 GC06U900706 GC06P165056 GC06P167585


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TCP10L2 Gene:
TCP10L2 (t-complex 10-like 2) is a protein-coding gene. Diseases associated with TCP10L2 include spina bifida. An important paralog of this gene is TCP10L.


(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:
   Regulatory transcription factor binding sites in the TCP10L2 gene promoter:
         AML1a   NRSF form 1   HNF-4alpha2   NRSF form 2   C/EBPalpha   HNF-4alpha1   PPAR-gamma1   SEF-1 (1)   PPAR-gamma2   Pax-4a   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TCP10L2


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

Entrez Gene cytogenetic band: 6q27   Ensembl cytogenetic band:  6q27   HGNC cytogenetic band: 6q27

TCP10L2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TCP10L2 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P167559:  view genomic region     (about GC identifiers)

Start:
167,559,902 bp from pter      End:
167,610,401 bp from pter
Size:
50,500 bases      Orientation:
plus 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, 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., 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/Swiss-Prot: TCP2L_HUMAN, B9ZVM9 (See protein sequence)
Recommended Name: Putative t-complex protein 10A homolog 2  
Size: 353 amino acids; 38357 Da
Caution: Could be the product of a pseudogene

Explore the universe of human proteins at neXtProt for TCP10L2: NX_B9ZVM9

Explore proteomics data for TCP10L2 at MOPED


See TCP10L2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001138593.1  
ENSEMBL proteins: 
 ENSP00000440886   ENSP00000355797   ENSP00000283507  

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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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1 InterPro protein domain:
 IPR026581 TCP10_fam

Graphical View of Domain Structure for InterPro Entry B9ZVM9

ProtoNet protein and cluster: B9ZVM9

UniProtKB/Swiss-Prot: TCP2L_HUMAN, B9ZVM9
Similarity: Belongs to the TCP10 family


TCP10L2 for domains           About GeneDecksing


(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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Animal Models:
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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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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol4
nucleus3
golgi apparatus1

(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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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TCP10L2
Interactions:

    Search GeneGlobe Interaction Network for TCP10L2

(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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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for TCP10L2 (TCP2L)



(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, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for TCP10L2 gene (2 alternative transcripts): 
NM_001145121.1  NM_001013683.1  

7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000539001 ENST00000486697 ENST00000366832(uc010kkp.3) ENST00000283507
ENST00000382669 ENST00000464222 ENST00000473271
miRNA
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12 AceView cDNA sequences:

BX282521 BV184084 AA723845 BV184083 AW086030 BX088871 AA563930 BV205237 
BX642943 AA705836 AW235358 BG723543 

GeneLoc Exon Structure

4 Alternative Splicing Database (ASD) splice patterns (SP) for TCP10L2    About this scheme

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b · 7c
SP1:        -     -           -                 -                     
SP2:                          -                 -                     
SP3:                    -     -                 -                     
SP4:                                                                  


ECgene alternative splicing isoforms for TCP10L2

(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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TCP10L2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
TCP10L2 Expression
About this image

TCP10L2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

TCP10L2 Protein Expression
    Custom PCR Arrays for TCP10L2
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TCP10L2

(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 chimp.

Orthologs for TCP10L2 gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chimpanzee
(Pan troglodytes)
Mammalia --
Uncharacterized protein
95(a)
1 → many
6(169067322-169080096)


ENSEMBL Gene Tree for TCP10L2 (if available)
TreeFam Gene Tree for TCP10L2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for TCP10L2 gene
TCP101 2  TCP10L2  
2 SIMAP similar genes for TCP10L2 using alignment to 4 protein entries:     TCP2L_HUMAN (see all proteins):
TCP10    TCP10L

TCP10L2 for paralogs           About GeneDecksing



(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 TCP10L2 (see all 358)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 6 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1454982331,2
C--167582191(+) AAAAC-/ATGTGGG 1 -- us2k10--------
rs1996937871,2
C--167582202(+) GTGGAC/TCTGCT 1 -- us2k10--------
rs1404230761,2
C--167582290(+) CACTGA/GGCCCT 1 -- us2k10--------
rs1383115181,2
C--167582311(+) CTTGTA/GGAGAT 1 -- us2k10--------
rs1912762071,2
--167582559(+) AACAAA/GCACAA 1 -- us2k10--------
rs1450841721,2
C--167582929(+) TCAGG-/ACAC  
        
ACACA
1 -- us2k10--------
rs2014835121,2
--167582983(+) TCAGG-/ACAC  
        
ACACA
1 -- us2k10--------
rs2007591611,2
C--167583129(+) ACACAA/CCTCAG 1 -- us2k10--------
rs626390631,2
C--167583211(+) CCTCAC/TGCACC 1 -- us2k11Minor allele frequency- T:0.50WA 2
rs571659931,2
--167583355(+) ACACAC/TCTCAG 1 -- us2k10--------

HapMap Linkage Disequilibrium report for TCP10L2 (167559902 - 167610401 bp)

Structural Variations
     Database of Genomic Variants (DGV) 7 variations for TCP10L2:    About this table    
Variant IDTypeSubtypePubMed ID
nsv469673CNV Loss16826518
nsv464141CNV Gain19166990
nsv8000CNV Gain18304495
nsv470873CNV Gain18288195
essv22845CNV CNV17122850
dgv2033e1CNV Complex17122850
nsv7389OTHER Inversion18451855

Site Specific Mutation Identification with PCR Assays
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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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1 disease for TCP10L2:    
About MalaCards
spina bifida

1 disease from the University of Copenhagen DISEASES database for TCP10L2:
Spina bifida

TCP10L2 for disorders           About GeneDecksing

Genetic Association Database (GAD): TCP10L2

Export disorders for TCP10L2 gene to outside databases

(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 article for TCP10L2 gene integrated from 10 sources:
(articles sorted by number of sources associating them with TCP10L2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)2 Mungall A.J.... Beck S. (Nature 2003)

(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: 401285 HGNC: 21254 AceView: LOC401285 Ensembl:ENSG00000166984 euGenes: HUgn401285
ECgene: TCP10L2 H-InvDB: TCP10L2

(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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NameDescription
PharmGKB entry for TCP10L2 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for TCP10L2 gene:
Search GeneIP for patents involving TCP10L2

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, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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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