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C6orf62 Gene

protein-coding   GIFtS: 42
GCID: GC06M024705

Chromosome 6 Open Reading Frame 62

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disease database 

(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 6 Open Reading Frame 621 2     HBV XAg-Transactivated Protein 122 3
HBV X-Transactivated Protein 121 2     Nbla002372
XTP122 3     dJ30M3.22
HBV X-Transactivated Gene 12 Protein2 3     Uncharacterized Protein C6orf622

External Ids:    HGNC: 209981   Entrez Gene: 816882   Ensembl: ENSG000001123087   UniProtKB: Q9GZU03   

Export aliases for C6orf62 gene to outside databases

Previous GC identifers: GC06M024767 GC06M024813 GC06M024654


(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 C6orf62 Gene:
C6orf62 (chromosome 6 open reading frame 62) 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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Regulatory elements:
   Regulatory transcription factor binding sites in the C6orf62 gene promoter:
         AML1a   Sp1   ATF-2   AP-2gamma   HNF-1A   Gfi-1   CRE-BP1   POU2F1a   ARP-1   En-1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for C6orf62

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat C6orf62


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

Entrez Gene cytogenetic band: 6p22.3   Ensembl cytogenetic band:  6p22.3   HGNC cytogenetic band: 6p22.1

C6orf62 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C6orf62 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M024705:  view genomic region     (about GC identifiers)

Start:
24,705,089 bp from pter      End:
24,721,064 bp from pter
Size:
15,976 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: CF062_HUMAN, Q9GZU0 (See protein sequence)
Recommended Name: Uncharacterized protein C6orf62  
Size: 229 amino acids; 27083 Da
Secondary accessions: Q3LIB6 Q5JVZ2 Q5JVZ3 Q6IA63 Q9H1Z2
Alternative splicing: 2 isoforms:  Q9GZU0-1   Q9GZU0-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for C6orf62: NX_Q9GZU0

Explore proteomics data for C6orf62 at MOPED


See C6orf62 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_112201.1  
ENSEMBL proteins: 
 ENSP00000367359   ENSP00000367342   ENSP00000446225  

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antibodies-online proteins for C6orf62 (2 products) 

 
Search antibodies-online for peptides for C6orf62

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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:
 IPR027903 DUF4566

Graphical View of Domain Structure for InterPro Entry Q9GZU0

ProtoNet protein and cluster: Q9GZU0


Find genes that share domains with C6orf62           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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:0003674molecular_function ND--
     
Find genes that share ontologies with C6orf62           About GenesLikeMe


Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for C6orf62

miRNA
Products:
    
miRTarBase miRNAs that target C6orf62:
hsa-mir-744-5p (MIRT037596), hsa-mir-192-5p (MIRT026421), hsa-let-7b-5p (MIRT052274), hsa-mir-93-5p (MIRT048769), hsa-mir-1180-3p (MIRT035947)

Block miRNA regulation of human, mouse, rat C6orf62 using miScript Target Protectors
Selected qRT-PCR Assays for microRNAs that regulate C6orf62 (see all 43):
hsa-miR-4317 hsa-miR-429 hsa-miR-199a-3p hsa-miR-25 hsa-miR-218 hsa-miR-1184 hsa-miR-508-5p hsa-miR-186
SwitchGear 3'UTR luciferase reporter plasmidC6orf62 3' UTR sequence
Inhib. RNA
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GenScript: all cDNA clones in your preferred vector: C6orf62 (NM_030939)
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Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat C6orf62

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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C6orf62


(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
cytosol1

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

GO IDQualified GO termEvidencePubMed IDs
GO:0005622intracellular IDA--

Find genes that share ontologies with C6orf62           About GenesLikeMe


(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 C6orf62
Interactions:

    Search GeneGlobe Interaction Network for C6orf62

STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

2 Interacting proteins for C6orf62 (Q9GZU03 ENSP000003673594) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
NDUFA4L2Q9NRX33I2D: score=3 
ELAVL1ENSP000003852694STRING: ENSP00000385269
About this table

Gene Ontology (GO): 1 biological process term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0008150biological_process ND--

Find genes that share ontologies with C6orf62           About GenesLikeMe



(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 C6orf62 (CF062)



(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 C6orf62 gene: 
NM_030939.4  

3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000378119(uc003nel.3) ENST00000378102 ENST00000540769
miRNA
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Selected qRT-PCR Assays for microRNAs that regulate C6orf62 (see all 43):
hsa-miR-4317 hsa-miR-429 hsa-miR-199a-3p hsa-miR-25 hsa-miR-218 hsa-miR-1184 hsa-miR-508-5p hsa-miR-186
SwitchGear 3'UTR luciferase reporter plasmidC6orf62 3' UTR sequence
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Predesigned siRNA for gene silencing in human, mouse, rat C6orf62
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  QuantiFast Probe-based Assays in human, mouse, rat C6orf62

Selected AceView cDNA sequences (see all 493):

BM692651 BM999898 AW089273 AA844611 CB110902 AA830274 BM665330 AW152140 
AU138364 D20450 BE178693 BQ936611 BU733961 BF218075 AU125496 AI458673 
BF109576 BE349314 AA974142 AU119873 BX953065 BM693534 BU625429 AA806198 

GeneLoc Exon Structure

4 Alternative Splicing Database (ASD) splice patterns (SP) for C6orf62    About this scheme

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


ECgene alternative splicing isoforms for C6orf62

(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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C6orf62 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: ATAGGTAGAG
C6orf62 Expression
About this image


C6orf62 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 13) fully expand
 
 Brain (Nervous System)    fully expand to see all 2 entries
         Cerebral Cortex
 
 Testis (Reproductive System)
         Leydig Cells Testis Interstitium
 
 Ovary (Reproductive System)
         Oviduct
 
 Trophoblast (Extraembryonic Tissues)
         Trophoblast Cells Trophoblast
 
 Pancreas (Endocrine System)
         Islets of Langerhans
C6orf62 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

C6orf62 Protein Expression
    Custom PCR Arrays for C6orf62
Primer
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C6orf62

(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 C6orf62 gene from Selected species (see all 12)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia BC0055371 , 5 cDNA sequence BC0055371, 5 96.22(n)1
100(a)1
  13 (10.68 cM)5
795551  NM_024473.31  NP_077793.11 
 248016575 
chicken
(Gallus gallus)
Aves C2H6ORF621 chromosome 2 open reading frame, human C6orf62 92.43(n)
97.82(a)
  421005  XM_419091.3  XP_419091.1 
lizard
(Anolis carolinensis)
Reptilia C6orf626
chromosome 6 open reading frame 62
96(a)
1 ↔ 1
4(53936640-53944855)
African clawed frog
(Xenopus laevis)
Amphibia Xl.241692 Xenopus laevis transcribed sequence with strong similarity more 83.58(n)    BJ062873.1 
zebrafish
(Danio rerio)
Actinopterygii wufb59h042 wufb59h04 79.55(n)   322400  CK142829.1 


ENSEMBL Gene Tree for C6orf62 (if available)
TreeFam Gene Tree for C6orf62 (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 C6orf62 (see all 422)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 6 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1865789801,2
--24705817(+) ATGCGA/TTTTTC 1 -- ut310--------
rs37568141,2
C,F,A,H--24705835(-) GGGAAA/GGAAAT 1 -- ut31 trp333Minor allele frequency- N:0.00EA NA NS WA CSA 4821
rs1911783861,2
--24706056(+) TGTGCC/TTTCAG 1 -- ut310--------
rs1830350631,2
--24706250(+) GCATAC/GTGTTC 1 -- ut310--------
rs1153656151,2
F--24706278(+) TCTTTA/TAACTC 1 -- ut311Minor allele frequency- T:0.04WA 118
rs93587941,2
H--24706416(+) GCCCAG/ATGGGT 2 /H syn1 ese34Minor allele frequency- A:0.00NS EA 416
rs1398756231,2
C,F--24706452(+) CAGATG/ACTGCA 2 /S syn11Minor allele frequency- A:0.00NA 4552
rs1492377041,2
C,F--24706469(+) GAAGAT/CTGTAG 2 /I /V mis12Minor allele frequency- C:0.00NA EU 5873
rs2020457941,2
--24706486(+) TTTTTA/GGAGTC 2 P L mis10--------
rs2012187081,2
--24706496(+) CTGGAA/CGGGGA 1 -- int10--------

HapMap Linkage Disequilibrium report for C6orf62 (24705089 - 24721064 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for C6orf62:    About this table    
Variant IDTypeSubtypePubMed ID
nsv515732CNV Loss19592680
nsv830609CNV Gain17160897

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing C6orf62
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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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Find genes that share disorders with C6orf62           About GenesLikeMe

Genetic Association Database (GAD): C6orf62

Export disorders for C6orf62 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 articles for C6orf62 gene, integrated from 10 sources (see all 11):
(articles sorted by number of sources associating them with C6orf62)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (Genome Res. 2001)
  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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
  4. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (Nature 2003)
  5. Duffy-null-associated low neutrophil counts influence HIV-1 susceptibility in high-risk South African black women. (PubMed id 21507922)4 Ramsuran V....Ndung'u T. (Clin. Infect. Dis. 2011)
  6. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (EMBO J. 2009)
  7. A human protein-protein interaction network: a resource for annotating the proteome. (PubMed id 16169070)1 Stelzl U.... Wanker E.E. (Cell 2005)
  8. Neuroblastoma oligo-capping cDNA project: toward the understanding of the genesis and biology of neuroblastoma. (PubMed id 12880961)2 Ohira M.... Nakagawara A. (Cancer Lett. 2003)
  9. 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)
  10. Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing. (PubMed id 11256614)1 Simpson J.C.... Wiemann S. (EMBO Rep. 2000)

(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: 81688 HGNC: 20998 AceView: C6orf62 Ensembl:ENSG00000112308 euGenes: HUgn81688
ECgene: C6orf62 H-InvDB: C6orf62

(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 C6orf62 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 C6orf62 gene:
Search GeneIP for patents involving C6orf62

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, eBioscience, antibodies-online, 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 genOway)
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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 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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