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C16orf82 Gene

RNA gene   GIFtS: 35
GCID: GC16P026986

Chromosome 16 Open Reading Frame 82

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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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Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 3

Aliases
Chromosome 16 Open Reading Frame 821 2
TNT2
Protein TNT2

External Ids:    HGNC: 307551   Entrez Gene: 1620832   Ensembl: ENSG000002341867   UniProtKB: Q7Z2V13   

Export aliases for C16orf82 gene to outside databases

Previous GC identifer: GC16P025167


(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 C16orf82 Gene:
C16orf82 (chromosome 16 open reading frame 82) is an RNA gene, and is affiliated with the lncRNA class.


(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_000016.9  NC_018927.2  NT_187260.1  
Regulatory elements:
   Regulatory transcription factor binding sites in the C16orf82 gene promoter:
         c-Fos   AP-1   CUTL1   RORalpha2   RORalpha1   CBF-B   Nkx6-1   c-Myb   c-Jun   TGIF   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidC16orf82 promoter sequence
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat C16orf82


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

Entrez Gene cytogenetic band: 16p12.1   Ensembl cytogenetic band:  16p12.1   HGNC cytogenetic band: 16p12.1

C16orf82 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
C16orf82 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16P026986:  view genomic region     (about GC identifiers)

Start:
27,078,028 bp from pter      End:
27,080,487 bp from pter
Size:
2,460 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., 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: TNT_HUMAN, Q7Z2V1 (See protein sequence)
Recommended Name: Protein TNT  
Size: 217 amino acids; 23111 Da
Secondary accessions: B9EGC2 Q8NEF0

Explore the universe of human proteins at neXtProt for C16orf82: NX_Q7Z2V1

Explore proteomics data for C16orf82 at MOPED


See C16orf82 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001139017.1  

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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: Q7Z2V1


(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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Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for C16orf82

miRNA
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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
cytosol2
nucleus2
extracellular1

(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 C16orf82
Interactions:

    Search GeneGlobe Interaction Network for C16orf82

(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
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Browse Tocris compounds for C16orf82 (TNT)



(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 C16orf82 gene (2 alternative transcripts): 
NM_182831.1  NM_001145545.1  

Unigene Cluster for C16orf82:

Chromosome 16 open reading frame 82
Hs.120831  [show with all ESTs]
Unigene Representative Sequence: AF536240
2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000505035(lincRNA) ENST00000418886(lincRNA)(uc010vcm.2)
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Additional mRNA sequence: 

AF536240.1 AK311574.1 BC031257.1 BC136370.1 BC136382.1 

1 DOTS entry:

DT.101979239 

Selected AceView cDNA sequences (see all 44):

AA399310 AA398244 AA709253 BI828977 AA725709 BM559574 AA401777 AA723645 
CD300262 AI636668 BC031257 AL042391 NM_182831 AW515660 AI147451 BI519998 
AL044140 AA758821 AI656343 BI827317 AL042417 AI190733 AF536240 BI828894 

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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Expression evidence for C16orf82:none

C16orf82 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GTGACAGAGC
C16orf82 Expression
About this image

C16orf82 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

C16orf82 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.120831

UniProtKB/Swiss-Prot: TNT_HUMAN, Q7Z2V1
Tissue specificity: Preferentially expressed in teratocarcinoma rather than in normal testis

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In Situ
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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 mammals.

Orthologs for C16orf82 gene from Selected species (see all 3)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
dog
(Canis familiaris)
Mammalia C6H16orf821 chromosome 16 open reading frame 82 ortholog 66.67(n)
51.3(a)
  608083  NM_001145760.1  NP_001139232.1 


ENSEMBL Gene Tree for C16orf82 (if available)
TreeFam Gene Tree for C16orf82 (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 C16orf82 (see all 163)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 16 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1409429651,2
--27076225(+) TCATTA/TAGTTT 1 -- us2k10--------
rs1415365641,2
--27076237(+) TATTCC/TGGCTG 1 -- us2k10--------
rs1146278901,2
C,F--27076286(+) TGTCAC/TAAGGA 1 -- us2k11Minor allele frequency- T:0.01WA 118
rs1156475681,2
C,F--27076330(+) CAGGGG/ACCAGG 1 -- us2k11Minor allele frequency- A:0.08WA 118
rs1505319251,2
C--27076397(+) CCAGCA/CTGGCC 1 -- us2k10--------
rs1907993471,2
--27076522(+) GAGGCA/GGAGGT 1 -- us2k10--------
rs1836209091,2
--27076608(+) GGAGTG/TGGGGA 1 -- us2k10--------
rs2014745301,2
--27076620(+) CCAGG-/CACGGT
GGCTCACAC
CTGTA
1 -- cds10--------
rs1395384471,2
C--27076674(+) TCGGGA/GGTTTG 1 -- us2k10--------
rs1496658901,2
C--27076678(+) GAGTTC/TGAGAC 1 -- us2k10--------

HapMap Linkage Disequilibrium report for C16orf82 (27078028 - 27080487 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for C16orf82:    About this table    
Variant IDTypeSubtypePubMed ID
esv2678609CNV Deletion23128226
dgv2663n71CNV Gain21882294

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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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1 disease from the University of Copenhagen DISEASES database for C16orf82:
Nemaline myopathy

Find genes that share disorders with C16orf82           About GenesLikeMe

Genetic Association Database (GAD): C16orf82

Export disorders for C16orf82 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 C16orf82 gene integrated from 10 sources:
(articles sorted by number of sources associating them with C16orf82)
    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. The sequence and analysis of duplication-rich human chromosome 16. (PubMed id 15616553)2 Martin J.... Pennacchio L.A. (Nature 2004)
  4. (PubMed id )2 
  5. Parasites, proteomics and performance: effects of gregarine gut parasites on dragonfly flight muscle composition and function. (PubMed id 18055619)9 Schilder R.J. and Marden J.H. (J. Exp. Biol. 2007)

(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: 162083 HGNC: 30755 AceView: TNT Ensembl:ENSG00000234186 euGenes: HUgn162083
ECgene: C16orf82 H-InvDB: C16orf82

(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 C16orf82 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 C16orf82 gene:
Search GeneIP for patents involving C16orf82

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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