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TMCO2 Gene

protein-coding   GIFtS: 37
GCID: GC01P040711

Transmembrane And Coiled-Coil Domains 2

  Search for TMCO2
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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Transmembrane And Coiled-Coil Domains 21 2
dJ39G22.22
DJ39G22.2 (Novel Protein)2
Transmembrane And Coiled-Coil Domain-Containing Protein 22

External Ids:    HGNC: 233121   Entrez Gene: 1273912   Ensembl: ENSG000001888007   UniProtKB: Q7Z6W13   
ORGUL members:         

Export aliases for TMCO2 gene to outside databases

Previous GC identifers: GC01P040384 GC01P040486 GC01P038832


(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 TMCO2 Gene:
TMCO2 (transmembrane and coiled-coil domains 2) is a protein-coding 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000001.11  NC_018912.2  NT_032977.10  
Regulatory elements:
   Regulatory transcription factor binding sites in the TMCO2 gene promoter:
         Oct-B1   oct-B3   oct-B2   HNF-4alpha2   CUTL1   HNF-4alpha1   PPAR-gamma1   POU2F1   Nkx6-1   PPAR-gamma2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTMCO2 promoter sequence
   Search Chromatin IP Primers for TMCO2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TMCO2


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

Entrez Gene cytogenetic band: 1p34.2   Ensembl cytogenetic band:  1p34.2   HGNC cytogenetic band: 1p34.2

TMCO2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TMCO2 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P040711:  view genomic region     (about GC identifiers)

Start:
40,711,619 bp from pter      End:
40,717,365 bp from pter
Size:
5,747 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: TMCO2_HUMAN, Q7Z6W1 (See protein sequence)
Recommended Name: Transmembrane and coiled-coil domain-containing protein 2  
Size: 182 amino acids; 20071 Da

Explore the universe of human proteins at neXtProt for TMCO2: NX_Q7Z6W1

Explore proteomics data for TMCO2 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TMCO2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001008740.1  
    ENSEMBL proteins: 
     ENSP00000361852  

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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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    ProtoNet protein and cluster: Q7Z6W1


    (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:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TMCO2
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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 UniProtKB/Swiss-Prot
    TMCO2_HUMAN, Q7Z6W1: Membrane; Single-pass membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol3
    plasma membrane3
    peroxisome1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral component of membrane IEA--

    TMCO2 for ontologies           About GeneDecksing


    (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 TMCO2
    Interactions:

        Search GeneGlobe Interaction Network for TMCO2

    STRING Interaction Network Preview (showing 5 interactants - click image to see more details)

    5 Interacting proteins for TMCO2 (ENSP000003618524) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DYRK3ENSP000003560764STRING: ENSP00000356076
    LCE2CENSP000003577724STRING: ENSP00000357772
    LCE2DENSP000003577734STRING: ENSP00000357773
    LCE4AENSP000003352234STRING: ENSP00000335223
    --ENSP000003908354STRING: ENSP00000390835
    About this table

    (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 TMCO2



    (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 TMCO2 gene: 
    NM_001008740.3  

    Unigene Cluster for TMCO2:

    Transmembrane and coiled-coil domains 2
    Hs.406265  [show with all ESTs]
    Unigene Representative Sequence: BI829449
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000468258 ENST00000372766(uc001cfe.2)
    miRNA
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    Additional mRNA sequence: BC108666.1 

    3 DOTS entries:

    DT.409636  DT.100671811  DT.100662257 

    Selected AceView cDNA sequences (see all 32):

    BX416836 AA778498 CR613757 BX113827 AA626247 AA437287 AA442366 AI187708 
    AI201263 AA625857 BU567634 BM563243 AI203907 AI961118 BU569147 AI678062 
    AA609166 BI829242 AI917789 AI337034 BU569625 AA927799 BQ441326 BI829432 

    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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    TMCO2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGTGCAGTGG
    TMCO2 Expression
    About this image

    TMCO2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TMCO2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.406265
        Custom PCR Arrays for TMCO2
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    In Situ
    Assay Products:
     

     
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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 TMCO2 gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tmco21 , 5 transmembrane and coiled-coil domains 21, 5 85.85(n)1
    78.49(a)1
      4 (56.80 cM)5
    694691  NM_001081312.11  NP_001074781.11 
     1211056515 


    ENSEMBL Gene Tree for TMCO2 (if available)
    TreeFam Gene Tree for TMCO2 (if available)

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

    (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 TMCO2 (see all 150)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs94390171,2
    C,F,H--38830510(+) CGCACC/TTGTGA 1 -- us2k111Minor allele frequency- N:0.00NS EA NA WA 986
    rs94390181,2
    C,F,A,H--38830591(+) GCCAAG/AGCTTT 1 -- us2k121Minor allele frequency- A:0.32NS EA NA WA CSA 2343
    rs1382257341,2
    --38830593(+) CAAAGA/CTTTGT 1 -- us2k10--------
    rs1837080711,2
    --40711605(+) ACTACG/TATAGC 1 -- us2k10--------
    rs1436057521,2
    --40711671(+) CCAGGC/TATTTT 1 -- us2k10--------
    rs793899511,2
    C,F--40711754(+) AAAGGC/TGGACT 1 -- us2k11Minor allele frequency- T:0.01NA 120
    rs1505733911,2
    --40711808(+) CAAGGC/TAGGAG 1 -- us2k10--------
    rs726706291,2
    C--40711810(+) AGGTAC/GGAGGA 1 -- us2k10--------
    rs1891560591,2
    --40711872(+) ATTTCC/TACTAA 1 -- us2k10--------
    rs1492725311,2
    --40711898(+) CCAGGC/TGTGGC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for TMCO2 (40711619 - 40717365 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for TMCO2:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv829660CNV Gain+Loss17160897

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TMCO2
    DNA2.0 Custom Variant and Variant Library Synthesis for TMCO2

    (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 TMCO2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TMCO2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
    2. 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. (Genome Res. 2004)
    3. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (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: 127391 HGNC: 23312 AceView: LOC127391 Ensembl:ENSG00000188800 euGenes: HUgn127391
    ECgene: TMCO2 H-InvDB: TMCO2

    (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 TMCO2 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 TMCO2 gene:
    Search GeneIP for patents involving TMCO2

    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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     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TMCO2
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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