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C18orf21 Gene

protein-coding   GIFtS: 35
GCID: GC18P033552

Chromosome 18 Open Reading Frame 21

  Search for C18orf21
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 18 Open Reading Frame 211 2     HsT31082
XTP132 3     PNAS-1312
HBV X-Transactivated Gene 13 Protein2 3     HBV X-Transactivated Protein 132
HBV XAg-Transactivated Protein 132 3     UPF0711 Protein C18orf212

External Ids:    HGNC: 288021   Entrez Gene: 836082   Ensembl: ENSG000001414287   UniProtKB: Q32NC03   

Export aliases for C18orf21 gene to outside databases

Previous GC identifers: GC18P031805 GC18P031806 GC18P030411


(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 C18orf21 Gene:
C18orf21 (chromosome 18 open reading frame 21) 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_000018.10  NT_010966.15  NC_018929.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the C18orf21 gene promoter:
         AhR   RP58   Nkx2-2   NF-E2 p45   Evi-1   Arnt   YY1   GATA-1   Pax-4a   NF-E2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for C18orf21

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat C18orf21


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

Entrez Gene cytogenetic band: 18q12.2   Ensembl cytogenetic band:  18q12.2   HGNC cytogenetic band: 18q12.2

C18orf21 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C18orf21 gene location

GeneLoc information about chromosome 18         GeneLoc Exon Structure

GeneLoc location for GC18P033552:  view genomic region     (about GC identifiers)

Start:
33,552,046 bp from pter      End:
33,559,250 bp from pter
Size:
7,205 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, 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/Swiss-Prot: CR021_HUMAN, Q32NC0 (See protein sequence)
Recommended Name: UPF0711 protein C18orf21  
Size: 220 amino acids; 24827 Da
Sequence caution: Sequence=AAK07541.1; Type=Erroneous initiation; Sequence=AAK07547.1; Type=Frameshift;
Positions=216;
Secondary accessions: Q6GW03 Q9BXV6 Q9BXW2

Explore the universe of human proteins at neXtProt for C18orf21: NX_Q32NC0

Explore proteomics data for C18orf21 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See C18orf21 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_001188403.1  NP_001188404.1  NP_001188405.1  NP_113634.3  

    ENSEMBL proteins: 
     ENSP00000465517   ENSP00000269194   ENSP00000466400   ENSP00000329492  

    C18orf21 Human Recombinant Protein Products:

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    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for C18orf21 

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    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.
    Search eBioscience for ELISAs for C18orf21 


    (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: Q32NC0

    UniProtKB/Swiss-Prot: CR021_HUMAN, Q32NC0
    Similarity: Belongs to the UPF0711 family


    (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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    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for C18orf21
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for C18orf21
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    GenScript: all cDNA clones in your preferred vector (see all 4): C18orf21 (NM_031446)
    Browse Sino Biological Human cDNA Clones
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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
    nucleus2
    extracellular1
    golgi apparatus1
    mitochondrion1

    (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 C18orf21
    Interactions:

        Search GeneGlobe Interaction Network for C18orf21

    (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 C18orf21 (CR021)



    (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 C18orf21 gene (4 alternative transcripts): 
    NM_001201474.1  NM_001201475.1  NM_001201476.1  NM_031446.4  

    Unigene Cluster for C18orf21:

    Chromosome 18 open reading frame 21
    Hs.37883  [show with all ESTs]
    Unigene Representative Sequence: NM_001201475
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000592875 ENST00000269194 ENST00000587719 ENST00000587873 ENST00000593210
    ENST00000333234(uc002kzc.3 uc002kzd.3 uc021uit.1 uc021uiu.1)

    miRNA
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat C18orf21
      QuantiTect SYBR Green Assays in human, mouse, rat C18orf21
      QuantiFast Probe-based Assays in human, mouse, rat C18orf21

    Additional mRNA sequence: 

    AF277182.1 AF277189.1 AK311536.1 AY631401.1 BC025950.1 BC108730.1 BC119765.1 BC119766.1 

    6 DOTS entries:

    DT.415320  DT.100749668  DT.121084241  DT.121084245  DT.121084248  DT.75175063 

    Selected AceView cDNA sequences (see all 93):

    BM313795 AA383058 BQ130789 W87660 AA707048 AA776764 AI741440 AA889614 
    AW246709 AA768308 AA719476 CA307632 AA459936 AA760730 BX112984 BQ279004 
    BM712459 AA758507 AA287109 AA648431 CA314152 BU622514 AA766092 BE891895 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for C18orf21    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d
    SP1:              -     -     -                                       
    SP2:                    -     -                                       
    SP3:                                                                  
    SP4:        -                                                         
    SP5:                                      -                           


    ECgene alternative splicing isoforms for C18orf21

    (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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    C18orf21 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GAAACTAGAT
    C18orf21 Expression
    About this image

    C18orf21 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    C18orf21 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.37883
        Custom PCR Arrays for C18orf21
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C18orf21

    (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 C18orf21 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia 2700062C07Rik1 , 5 RIKEN cDNA 2700062C07 gene1, 5 79.28(n)1
    74.77(a)1
      18 (13.18 cM)5
    680461  NM_026529.41  NP_080805.11 
     244708715 
    chicken
    (Gallus gallus)
    Aves C18ORF211 chromosome 2 open reading frame, human C18orf21 60.79(n)
    49.52(a)
      420954  XM_419039.4  XP_419039.4 
    lizard
    (Anolis carolinensis)
    Reptilia C18orf216
    chromosome 18 open reading frame 21
    40(a)
    1 ↔ 1
    6(57668395-57677851)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia c18orf211 chromosome 18 open reading frame 21 54.07(n)
    44.5(a)
      100124977  NM_001102910.1  NP_001096380.1 
    zebrafish
    (Danio rerio)
    Actinopterygii si:dkey-184p18.21 si:dkey-184p18.2 46.14(n)
    33.99(a)
      768134  NM_001077280.1  NP_001070748.1 


    ENSEMBL Gene Tree for C18orf21 (if available)
    TreeFam Gene Tree for C18orf21 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for C18orf21 gene

    Find genes that share paralogs with C18orf21           About GenesLikeMe


    2 Pseudogenes.org Pseudogenes for C18orf21
    PGOHUM00000245617 PGOHUM00000243428


    (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 C18orf21 (see all 194)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 18 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1867809951,2
    C--33550681(+) TCGCCC/GAGGCT 4 -- us2k10--------
    rs1403893481,2
    C--33550798(+) CCACAA/CCTGGC 4 -- us2k10--------
    rs1900954431,2
    --33550827(+) TAGAGA/GCAGGG 4 -- us2k10--------
    rs621013671,2
    C,F--33550884(+) ATCCAC/TCCGCT 4 -- us2k17Minor allele frequency- T:0.30WA NA CSA EA 366
    rs1503891121,2
    C--33550932(+) ACTGCA/GCCTAG 4 -- us2k10--------
    rs1129872531,2
    C,F--33551031(+) GGATCG/ACTTGA 4 -- us2k13Minor allele frequency- A:0.50NA CSA 6
    rs754465601,2
    --33551106(+) AATAAC/TAACAA 4 -- us2k10--------
    rs1459881771,2
    --33551107(+) ATAATA/GACAAC 4 -- us2k10--------
    rs1998258651,2
    --33551107(+) ATAAT-/AAC   
      AACAAC
    AACAA
    4 -- us2k10--------
    rs1383680121,2
    C--33551186(+) GGCAAA/GAGAAC 4 -- us2k10--------

    HapMap Linkage Disequilibrium report for C18orf21 (33552046 - 33559250 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for C18orf21: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing C18orf21
    DNA2.0 Custom Variant and Variant Library Synthesis for C18orf21

    (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 C18orf21 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with C18orf21)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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)
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    3. A whole genome screen for HIV restriction factors. (PubMed id 22082156)1 Liu L....McKnight A. (Retrovirology 2011)
    4. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)
    5. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)
    6. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (Proc. Natl. Acad. Sci. U.S.A. 2008)
    7. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1 Beausoleil S.A.... Gygi S.P. (Nat. Biotechnol. 2006)
    8. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)

    (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: 83608 HGNC: 28802 AceView: C18orf21 Ensembl:ENSG00000141428 euGenes: HUgn83608
    ECgene: C18orf21 H-InvDB: C18orf21

    (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 C18orf21 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 C18orf21 gene:
    Search GeneIP for patents involving C18orf21

    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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