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C15orf27 Gene

protein-coding   GIFtS: 44
GCID: GC15P076352

Chromosome 15 Open Reading Frame 27

  Search for C15orf27
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
Chromosome 15 Open Reading Frame 271 2
Transmembrane Protein C15orf272

External Ids:    HGNC: 267631   Entrez Gene: 1235912   Ensembl: ENSG000001697587   UniProtKB: Q2M3C63   

Export aliases for C15orf27 gene to outside databases

Previous GC identifers: GC15P074069 GC15P074139 GC15P053183


(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 C15orf27 Gene:
C15orf27 (chromosome 15 open reading frame 27) is a protein-coding gene. An important paralog of this gene is HVCN1.


(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_000015.10  NT_010194.18  NC_018926.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the C15orf27 gene promoter:
         Nkx3-1   ISGF-3   Nkx3-1 v4   Nkx3-1 v1   GATA-1   Nkx3-1 v2   FOXO4   FOXO1a   Nkx3-1 v3   FOXO1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for C15orf27

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat C15orf27


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

Entrez Gene cytogenetic band: 15q24.2   Ensembl cytogenetic band:  15q24.2   HGNC cytogenetic band: 15q23-q24.1

C15orf27 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C15orf27 gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15P076352:  view genomic region     (about GC identifiers)

Start:
76,352,178 bp from pter      End:
76,521,462 bp from pter
Size:
169,285 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: CO027_HUMAN, Q2M3C6 (See protein sequence)
Recommended Name: Transmembrane protein C15orf27  
Size: 531 amino acids; 58444 Da
Sequence caution: Sequence=AAI04954.1; Type=Erroneous initiation; Sequence=AAI04956.1; Type=Erroneous initiation;
Sequence=BAB71676.1; Type=Erroneous initiation; Sequence=BAC04562.1; Type=Frameshift; Positions=13, 93;
Secondary accessions: Q8N993 Q96LL5
Alternative splicing: 2 isoforms:  Q2M3C6-1   Q2M3C6-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for C15orf27: NX_Q2M3C6

Explore proteomics data for C15orf27 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn8, Asn363, Asn380
  • Modification sites at PhosphoSitePlus

  • See C15orf27 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_689548.2  
    ENSEMBL proteins: 
     ENSP00000373594   ENSP00000435049   ENSP00000453957  

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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:
     IPR027359 Channel_four-helix_dom

    Graphical View of Domain Structure for InterPro Entry Q2M3C6

    ProtoNet protein and cluster: Q2M3C6


    C15orf27 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:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for C15orf27
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    miRNA
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    hsa-mir-148b-3p (MIRT019303)

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    hsa-miR-1178 hsa-miR-4254 hsa-miR-148b hsa-miR-128 hsa-miR-29c hsa-miR-29a hsa-miR-512-3p hsa-miR-650
    SwitchGear 3'UTR luciferase reporter plasmidC15orf27 3' UTR sequence
    Inhib. RNA
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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
    CO027_HUMAN, Q2M3C6: Membrane; Multi-pass membrane protein (Potential). Cell membrane; Multi-pass membrane
    protein
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane3
    cytosol1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005886plasma membrane IEA--
    GO:0016021integral component of membrane IEA--

    C15orf27 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 C15orf27
    Interactions:

        Search GeneGlobe Interaction Network for C15orf27

    (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 C15orf27 (CO027)



    (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 C15orf27 gene: 
    NM_152335.2  

    Unigene Cluster for C15orf27:

    Chromosome 15 open reading frame 27
    Hs.661411  [show with all ESTs]
    Unigene Representative Sequence: NM_152335
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000388942(uc002bbq.3 uc002bbr.3) ENST00000484722 ENST00000559079
    ENST00000561302(uc010bkp.3) ENST00000558249(uc002bbs.3)
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate C15orf27 (see all 25):
    hsa-miR-1178 hsa-miR-4254 hsa-miR-148b hsa-miR-128 hsa-miR-29c hsa-miR-29a hsa-miR-512-3p hsa-miR-650
    SwitchGear 3'UTR luciferase reporter plasmidC15orf27 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat C15orf27
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    Primer
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    OriGene qPCR primer pairs and template standards for C15orf27
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat C15orf27
      QuantiTect SYBR Green Assays in human, mouse, rat C15orf27
      QuantiFast Probe-based Assays in human, mouse, rat C15orf27

    Additional mRNA sequence: 

    AK054866.1 AK056777.1 AK058126.1 AK095509.1 AK308676.1 BC104953.1 BC104955.1 

    4 DOTS entries:

    DT.100844519  DT.433943  DT.97822402  DT.97774959 

    13 AceView cDNA sequences:

    NM_152335 AK095509 BX398159 BX377202 BQ009353 AA232331 BQ009396 AK058126 
    AK054866 BP369654 AK056777 AL699780 AA633991 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for C15orf27    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13
    SP1:              -     -                                               -                     
    SP2:                                                                                          
    SP3:                                                                                          


    ECgene alternative splicing isoforms for C15orf27

    (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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    C15orf27 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGCGTTTCTG
    C15orf27 Expression
    About this image

    C15orf27 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    C15orf27 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.661411
        Custom PCR Arrays for C15orf27
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C15orf27

    (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 chordates.

    Orthologs for C15orf27 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia AI1180781 , 5 expressed sequence AI1180781, 5 87.36(n)1
    88.11(a)1
      9 (29.98 cM)5
    2448861  NM_172923.31  NP_766511.11 
     553269135 
    chicken
    (Gallus gallus)
    Aves C15ORF271 chromosome 10 open reading frame, human C15orf27 74.61(n)
    76.55(a)
      770288  XM_001233622.3  XP_001233623.3 
    lizard
    (Anolis carolinensis)
    Reptilia C15orf276
    chromosome 15 open reading frame 27
    35(a)
    1 ↔ 1
    AAWZ02041122(21-4712)
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.144932 Transcribed sequences 80.95(n)    BQ077807.1 


    ENSEMBL Gene Tree for C15orf27 (if available)
    TreeFam Gene Tree for C15orf27 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for C15orf27 gene
    HVCN12  

    C15orf27 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 C15orf27 (see all 3064)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1427459291,2
    C--76350325(+) AAATT-/TCTC  
            
    TCAGC
    1 -- us2k10--------
    rs1868524961,2
    --76350335(+) CAGCAA/GGTTTC 1 -- us2k10--------
    rs29598511,2
    C,F,A,H--76350447(+) GAGTGG/CATAAC 1 -- us2k18Minor allele frequency- C:0.08NS EA WA CSA NA 656
    rs14981981,2
    C,F,A,H--76350516(-) CAGTCA/GGTGAC 1 -- us2k1 tfbs313Minor allele frequency- G:0.20NS EA NA WA CSA 1495
    rs1168177821,2
    F--76350620(+) AGAAAT/CGTAGA 1 -- us2k11Minor allele frequency- C:0.02WA 118
    rs1386177841,2
    --76350633(+) AATCCA/TTTGGC 1 -- us2k10--------
    rs1906985021,2
    --76350655(+) CTTCCA/GCAAGT 1 -- us2k10--------
    rs1825286571,2
    --76350734(+) AAGGCA/GAAGGA 1 -- us2k10--------
    rs1871784781,2
    --76350754(+) GAAATC/TTTACA 1 -- us2k10--------
    rs14981971,2
    C,F--76350773(-) TGGCAA/CACTGA 1 -- us2k14Minor allele frequency- C:0.12WA CSA NA 242

    HapMap Linkage Disequilibrium report for C15orf27 (76352178 - 76521462 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for C15orf27:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2669418CNV Deletion23128226
    esv2749895CNV Deletion23290073
    esv2660944CNV Deletion23128226
    esv2665159CNV Deletion23128226
    esv2749898CNV Deletion23290073
    esv274972CNV Loss21479260
    nsv833057CNV Loss17160897
    nsv1617CNV Loss18451855
    nsv904398CNV Gain21882294

    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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      --

    (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 C15orf27 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with C15orf27)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Aspartatea88112 is the selectivity filter of the human voltage-gated proton channel. (PubMed id 22020278)1, 2, 3 Musset B....Decoursey T.E. (Nature 2011)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2, 3 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)1, 2 Zody M.C....Nusbaum C. (Nature 2006)
    4. 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)
    5. A whole genome screen for HIV restriction factors. (PubMed id 22082156)1 Liu L....McKnight A. (Retrovirology 2011)
    6. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    7. Sequence comparison of human and mouse genes reveals a homologous block structure in the promoter regions. (PubMed id 15342556)1 Suzuki Y.... Sugano S. (Genome Res. 2004)
    8. 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: 123591 HGNC: 26763 AceView: C15orf27 Ensembl:ENSG00000169758 euGenes: HUgn123591
    ECgene: C15orf27 H-InvDB: C15orf27

    (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 C15orf27 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 C15orf27 gene:
    Search GeneIP for patents involving C15orf27

    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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