Human Gene CCDC82 (uc001pfx.4)
  Description: Homo sapiens coiled-coil domain containing 82 (CCDC82), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr11:96,085,929-96,123,083 Size: 37,155 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr11:96,086,810-96,117,911 Size: 31,102 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:96,085,929-96,123,083)mRNA (may differ from genome)Protein (544 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CCD82_HUMAN
DESCRIPTION: RecName: Full=Coiled-coil domain-containing protein 82;
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
SEQUENCE CAUTION: Sequence=BAB15683.1; Type=Frameshift; Positions=527;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 17.84 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 433.36 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -74.50214-0.348 Picture PostScript Text
3' UTR -171.99881-0.195 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR025244 - DUF4196
IPR025451 - DUF4211

Pfam Domains:
PF13846 - Domain of unknown function (DUF4196)
PF13926 - Domain of unknown function (DUF4211)

ModBase Predicted Comparative 3D Structure on Q8N4S0
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  AK027171 - Homo sapiens cDNA: FLJ23518 fis, clone LNG04878.
AK074306 - Homo sapiens cDNA FLJ23726 fis, clone HEP14044.
AF245436 - Homo sapiens HT025 mRNA, complete cds.
JD154677 - Sequence 135701 from Patent EP1572962.
JD062042 - Sequence 43066 from Patent EP1572962.
JD086807 - Sequence 67831 from Patent EP1572962.
JD566496 - Sequence 547520 from Patent EP1572962.
JD312875 - Sequence 293899 from Patent EP1572962.
JD304822 - Sequence 285846 from Patent EP1572962.
JD317111 - Sequence 298135 from Patent EP1572962.
JD082523 - Sequence 63547 from Patent EP1572962.
BC033726 - Homo sapiens coiled-coil domain containing 82, mRNA (cDNA clone MGC:44958 IMAGE:5001231), complete cds.
AK056790 - Homo sapiens cDNA FLJ32228 fis, clone PLACE6004397, highly similar to Coiled-coil domain-containing protein 82.
JD359653 - Sequence 340677 from Patent EP1572962.
JD181515 - Sequence 162539 from Patent EP1572962.
AK314669 - Homo sapiens cDNA, FLJ95516.
EU831803 - Synthetic construct Homo sapiens clone HAIB:100066832; DKFZo008E1121 coiled-coil domain containing 82 protein (CCDC82) gene, encodes complete protein.
EU831880 - Synthetic construct Homo sapiens clone HAIB:100066909; DKFZo004E1122 coiled-coil domain containing 82 protein (CCDC82) gene, encodes complete protein.
BC018663 - Homo sapiens coiled-coil domain containing 82, mRNA (cDNA clone MGC:2462 IMAGE:2964737), complete cds.
JF432455 - Synthetic construct Homo sapiens clone IMAGE:100073667 coiled-coil domain containing 82 (CCDC82) gene, encodes complete protein.
KJ903222 - Synthetic construct Homo sapiens clone ccsbBroadEn_12616 CCDC82 gene, encodes complete protein.
JD396370 - Sequence 377394 from Patent EP1572962.
JD055355 - Sequence 36379 from Patent EP1572962.
AF161533 - Homo sapiens HSPC048 mRNA, complete cds.
AK313893 - Homo sapiens cDNA, FLJ94528, Homo sapiens HSPC048 protein (HSPC048), mRNA.
JD471675 - Sequence 452699 from Patent EP1572962.
JD179952 - Sequence 160976 from Patent EP1572962.
JD472089 - Sequence 453113 from Patent EP1572962.
JD141720 - Sequence 122744 from Patent EP1572962.
JD077367 - Sequence 58391 from Patent EP1572962.
JD109006 - Sequence 90030 from Patent EP1572962.
JD408805 - Sequence 389829 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KPU7, CCD82_HUMAN, HT025, NM_024725, NP_079001, Q8N4S0, Q8WV71, Q9H2Q5, Q9H5E3
UCSC ID: uc001pfx.4
RefSeq Accession: NM_024725
Protein: Q8N4S0 (aka CCD82_HUMAN)
CCDS: CCDS8307.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_024725.3
exon count: 10CDS single in 3' UTR: no RNA size: 2746
ORF size: 1635CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2896.00frame shift in genome: no % Coverage: 99.42
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.