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C11orf16 Gene

protein-coding   GIFtS: 43
GCID: GC11M008941

Chromosome 11 Open Reading Frame 16

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(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 11 Open Reading Frame 161 2
Uncharacterized Protein C11orf162

External Ids:    HGNC: 11691   Entrez Gene: 566732   Ensembl: ENSG000001760297   UniProtKB: Q9NQ323   

Export aliases for C11orf16 gene to outside databases

Previous GC identifers: GC11P009967 GC11M009632 GC11M008980 GC11M008905 GC11M008898 GC11M008611


(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 C11orf16 Gene:
C11orf16 (chromosome 11 open reading frame 16) is a protein-coding gene.

Gene Wiki entry for C11orf16 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 at NCBI GenBank:
NC_000011.9  NC_018922.2  NT_009237.19  
Regulatory elements:
   Regulatory transcription factor binding sites in the C11orf16 gene promoter:
         ER-alpha   AML1a   AP-1   ATF-2   AP-4   NRSF form 2   RORalpha1   COMP1   c-Jun   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for C11orf16

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat C11orf16


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

Entrez Gene cytogenetic band: 11p15.3   Ensembl cytogenetic band:  11p15.4   HGNC cytogenetic band: 11p15.3

C11orf16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C11orf16 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M008941:  view genomic region     (about GC identifiers)

Start:
8,941,623 bp from pter      End:
8,954,553 bp from pter
Size:
12,931 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., 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: CK016_HUMAN, Q9NQ32 (See protein sequence)
Recommended Name: Uncharacterized protein C11orf16  
Size: 467 amino acids; 51609 Da
Secondary accessions: Q53FB2 Q8N6Y9
Alternative splicing: 2 isoforms:  Q9NQ32-1   Q9NQ32-2   

Explore the universe of human proteins at neXtProt for C11orf16: NX_Q9NQ32

Explore proteomics data for C11orf16 at MOPED


See C11orf16 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_065694.2  
ENSEMBL proteins: 
 ENSP00000436818   ENSP00000318999   ENSP00000437069   ENSP00000436584  

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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: Q9NQ32


(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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Phenotypes:
     5 GenomeRNAi human phenotypes for C11orf16:
 Decreased homologous recombina  Decreased nuclei size in G2M  Decreased viability with pacli  Increased S DNA content 
 Increased gamma-H2AX phosphory 

Animal Models:
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miRNA
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miRTarBase miRNAs that target C11orf16:
hsa-mir-26b-5p (MIRT029160), hsa-mir-142-3p (MIRT021586)

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5 qRT-PCR Assays for microRNAs that regulate C11orf16:
hsa-miR-4297 hsa-miR-3138 hsa-miR-642b hsa-miR-1207-5p hsa-miR-552
SwitchGear 3'UTR luciferase reporter plasmidC11orf16 3' UTR sequence
Inhib. RNA
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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C11orf16


(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
cytosol2
nucleus2
extracellular1
mitochondrion1
peroxisome1

(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 C11orf16
Interactions:

    Search GeneGlobe Interaction Network for C11orf16

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

3 Interacting proteins for C11orf16 (Q9NQ323 ENSP000003189994) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
EWSR1Q018443, ENSP000003810314I2D: score=3 STRING: ENSP00000381031
--Q9BWA23I2D: score=1 
--Q96MX43I2D: score=1 
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(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 C11orf16 (CK016)



(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 C11orf16 gene: 
NM_020643.2  

Unigene Cluster for C11orf16:

Chromosome 11 open reading frame 16
Hs.277349  [show with all ESTs]
Unigene Representative Sequence: AK074455
6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000525780 ENST00000326053(uc001mhb.4 uc001mhc.4) ENST00000528998
ENST00000528830 ENST00000526227 ENST00000527607
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5 qRT-PCR Assays for microRNAs that regulate C11orf16:
hsa-miR-4297 hsa-miR-3138 hsa-miR-642b hsa-miR-1207-5p hsa-miR-552
SwitchGear 3'UTR luciferase reporter plasmidC11orf16 3' UTR sequence
Inhib. RNA
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Predesigned siRNA for gene silencing in human, mouse, rat C11orf16
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  QuantiFast Probe-based Assays in human, mouse, rat C11orf16

Additional mRNA sequence: 

AK074455.1 AK223377.1 BC027865.1 

4 DOTS entries:

DT.97807638  DT.75100926  DT.100643007  DT.91675523 

16 AceView cDNA sequences:

AI916300 AI697899 CD171707 AI202945 BM983753 NM_020643 AI358494 AI799116 
BX282735 BC027865 CA310676 BI770174 BM978791 AI688557 AK074455 AW293458 

GeneLoc Exon Structure

Selected Alternative Splicing Database (ASD) splice patterns (SP) for C11orf16 (see all 6)    About this scheme

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b · 4c ^ 5a · 5b ^ 6 ^ 7 ^ 8
SP1:                                      -     -     -     -                                 
SP2:                                      -     -     -     -                       -         
SP3:                          -           -                                                   
SP4:                                      -                                                   
SP5:                                      -     -                                             


ECgene alternative splicing isoforms for C11orf16

(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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C11orf16 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AGTGACATTT
C11orf16 Expression
About this image

C11orf16 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

C11orf16 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.277349
    Custom PCR Arrays for C11orf16
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for C11orf16

(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 C11orf16 gene from Selected species (see all 8)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia BC0510191 , 5 cDNA sequence BC0510191, 5 73.37(n)1
62.81(a)1
  7 (57.45 cM)5
573551  NM_001040700.21  NP_001035790.11 
 1097121815 
chicken
(Gallus gallus)
Aves C11ORF161 chromosome 5 open reading frame, human C11orf16 51.51(n)
37.69(a)
  423053  XM_420986.3  XP_420986.3 
lizard
(Anolis carolinensis)
Reptilia C11orf166
chromosome 11 open reading frame 16
56(a)
1 ↔ 1
1(64526235-64527544)


ENSEMBL Gene Tree for C11orf16 (if available)
TreeFam Gene Tree for C11orf16 (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 C11orf16 (see all 336)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 11 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs746776921,2
F--8942137(+) ACCAAG/CGCAGG 1 -- int11Minor allele frequency- C:0.03NA 120
rs25680241,2
C,H--8942426(-) ACAGTA/TCTGCT 1 -- int112Minor allele frequency- T:0.18NA WA CSA 255
rs1491890871,2
C--8942622(+) ACAGAC/GGGTCA 1 -- int10--------
rs1811294811,2
--8942651(+) CACCCC/GCAAGA 1 -- int10--------
rs27425141,2
C,F,A,H--8942670(-) ATGAAC/TTTAAT 1 -- int131Minor allele frequency- T:0.37NS EA NA WA CSA 2785
rs1437345141,2
--8942749(+) CATAGA/GTTTTA 1 -- int10--------
rs1468098731,2
C,F--8942867(+) TCTAAC/TGGGAA 2 H R mis12Minor allele frequency- T:0.01NA EU 5851
rs105837191,2
C--8942889(+) GACAT-/ATTGCAA 2 MS IC fra10--------
rs1998994951,2
--8942905(+) CTCTGA/GCTCCG 2 S syn10--------
rs2016195271,2
C--8942909(+) GACTCC/TGCTTT 2 Q R mis10--------

HapMap Linkage Disequilibrium report for C11orf16 (8941623 - 8954553 bp)

Structural Variations
     Database of Genomic Variants (DGV) 5 variations for C11orf16:    About this table    
Variant IDTypeSubtypePubMed ID
nsv435923CNV Deletion17901297
nsv832062CNV Loss17160897
essv24306CNV CNV17122850
nsv499766OTHER Inversion21111241
nsv7215OTHER 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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(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 C11orf16 gene integrated from 10 sources:
(articles sorted by number of sources associating them with C11orf16)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Comparative genomic sequencing reveals a strikingly similar architecture of a conserved syntenic region on human chromosome 11p15.3 (including gene ST5) and mouse chromosome 7. (PubMed id 11528127)1, 2, 3 Amid C.... Schmidt E.R. (Cytogenet. Cell Genet. 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. A Y2H-seq approach defines the human protein methyltransferase interactome. (PubMed id 23455924)1 Weimann M.... Stelzl U. (Nat. Methods 2013)
  4. 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)
  5. Human chromosome 11 DNA sequence and analysis including novel gene identification. (PubMed id 16554811)2 Taylor T.D....Sakaki Y. (Nature 2006)
  6. Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (Nature 2005)
  7. 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)
  8. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (Genome Res. 1996)
  9. Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides. (PubMed id 8125298)1 Maruyama K. and Sugano S. (Gene 1994)

(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: 56673 HGNC: 1169 AceView: C11orf16 Ensembl:ENSG00000176029 euGenes: HUgn56673
ECgene: C11orf16 H-InvDB: C11orf16

(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 C11orf16 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 C11orf16 gene:
Search GeneIP for patents involving C11orf16

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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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

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