Human Gene CCDC85C (ENST00000380243.9_8) from GENCODE V47lift37
  Description: coiled-coil domain containing 85C (from RefSeq NM_001144995.2)
Gencode Transcript: ENST00000380243.9_8
Gencode Gene: ENSG00000205476.9_11
Transcript (Including UTRs)
   Position: hg19 chr14:99,966,527-100,070,544 Size: 104,018 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr14:99,981,583-100,070,296 Size: 88,714 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:99,966,527-100,070,544)mRNA (may differ from genome)Protein (419 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CC85C_HUMAN
DESCRIPTION: RecName: Full=Coiled-coil domain-containing protein 85C;
FUNCTION: May play an important role in cortical development, especially in the maintenance of radial glia (By similarity).
SUBCELLULAR LOCATION: Cell junction, tight junction (By similarity). Note=Localizes to the apical junction of radial glia in the wall of lateral ventricles of the developing brain (By similarity). Colocalizes with TJP1 on the meshwork-like structure of adherens junctions on the lateral ventricles wall (By similarity).
SIMILARITY: Belongs to the CCDC85 family.

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: CCDC85C
Diseases sorted by gene-association score: obstructive hydrocephalus (9)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 10.15 RPKM in Brain - Cerebellum
Total median expression: 101.18 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -155.50248-0.627 Picture PostScript Text
3' UTR -5385.5015056-0.358 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
IPR019359 - DUF2216_coiled-coil

Pfam Domains:
PF10226 - CCDC85 family

ModBase Predicted Comparative 3D Structure on A6NKD9
FrontTopSide
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0007275 multicellular organism development
GO:0021987 cerebral cortex development

Cellular Component:
GO:0005923 bicellular tight junction
GO:0030054 cell junction
GO:0043296 apical junction complex


-  Descriptions from all associated GenBank mRNAs
  LF209645 - JP 2014500723-A/17148: Polycomb-Associated Non-Coding RNAs.
CU677520 - Synthetic construct Homo sapiens gateway clone IMAGE:100017077 3' read CCNK mRNA.
AK124466 - Homo sapiens cDNA FLJ42475 fis, clone BRACE2031232.
LF330431 - JP 2014500723-A/137934: Polycomb-Associated Non-Coding RNAs.
LF330432 - JP 2014500723-A/137935: Polycomb-Associated Non-Coding RNAs.
JD255239 - Sequence 236263 from Patent EP1572962.
JD249918 - Sequence 230942 from Patent EP1572962.
JD148347 - Sequence 129371 from Patent EP1572962.
JD463857 - Sequence 444881 from Patent EP1572962.
JD478606 - Sequence 459630 from Patent EP1572962.
JD543296 - Sequence 524320 from Patent EP1572962.
JD537358 - Sequence 518382 from Patent EP1572962.
JD249917 - Sequence 230941 from Patent EP1572962.
JD144681 - Sequence 125705 from Patent EP1572962.
LF330433 - JP 2014500723-A/137936: Polycomb-Associated Non-Coding RNAs.
BC031990 - Homo sapiens chromosome 14 open reading frame 65, mRNA (cDNA clone IMAGE:4746548).
AK026211 - Homo sapiens cDNA: FLJ22558 fis, clone HSI01557.
KJ904180 - Synthetic construct Homo sapiens clone ccsbBroadEn_13574 CCDC85C gene, encodes complete protein.
JD219473 - Sequence 200497 from Patent EP1572962.
JD460420 - Sequence 441444 from Patent EP1572962.
JD193523 - Sequence 174547 from Patent EP1572962.
AK093969 - Homo sapiens cDNA FLJ36650 fis, clone UTERU2000023.
AX748386 - Sequence 1911 from Patent EP1308459.
BC110042 - Homo sapiens chromosome 14 open reading frame 65, mRNA (cDNA clone IMAGE:5139193).
AK096927 - Homo sapiens cDNA FLJ39608 fis, clone SKNSH2007149.
BC029998 - Homo sapiens coiled-coil domain containing 85C, mRNA (cDNA clone IMAGE:5111363).
AK123840 - Homo sapiens cDNA FLJ41846 fis, clone NT2RI3003162.
JD281587 - Sequence 262611 from Patent EP1572962.
JD552253 - Sequence 533277 from Patent EP1572962.
JD144250 - Sequence 125274 from Patent EP1572962.
JD261659 - Sequence 242683 from Patent EP1572962.
JD151552 - Sequence 132576 from Patent EP1572962.
JD137332 - Sequence 118356 from Patent EP1572962.
JD054718 - Sequence 35742 from Patent EP1572962.
JD252020 - Sequence 233044 from Patent EP1572962.
JD535141 - Sequence 516165 from Patent EP1572962.
JD174774 - Sequence 155798 from Patent EP1572962.
JD061852 - Sequence 42876 from Patent EP1572962.
JD265706 - Sequence 246730 from Patent EP1572962.
JD183735 - Sequence 164759 from Patent EP1572962.
JD099810 - Sequence 80834 from Patent EP1572962.
JD488630 - Sequence 469654 from Patent EP1572962.
JD519270 - Sequence 500294 from Patent EP1572962.
JD383182 - Sequence 364206 from Patent EP1572962.
JD387264 - Sequence 368288 from Patent EP1572962.
JD257469 - Sequence 238493 from Patent EP1572962.
JD399416 - Sequence 380440 from Patent EP1572962.
JD364898 - Sequence 345922 from Patent EP1572962.
JD518354 - Sequence 499378 from Patent EP1572962.
JD381715 - Sequence 362739 from Patent EP1572962.
JD520454 - Sequence 501478 from Patent EP1572962.
JD397519 - Sequence 378543 from Patent EP1572962.
JD077538 - Sequence 58562 from Patent EP1572962.
JD565636 - Sequence 546660 from Patent EP1572962.
JD467424 - Sequence 448448 from Patent EP1572962.
JD165601 - Sequence 146625 from Patent EP1572962.
JD209081 - Sequence 190105 from Patent EP1572962.
JD535779 - Sequence 516803 from Patent EP1572962.
JD433208 - Sequence 414232 from Patent EP1572962.
JD135025 - Sequence 116049 from Patent EP1572962.
JD460002 - Sequence 441026 from Patent EP1572962.
JD141454 - Sequence 122478 from Patent EP1572962.
JD191969 - Sequence 172993 from Patent EP1572962.
JD369814 - Sequence 350838 from Patent EP1572962.
JD128649 - Sequence 109673 from Patent EP1572962.
MA566008 - JP 2018138019-A/137934: Polycomb-Associated Non-Coding RNAs.
MA566009 - JP 2018138019-A/137935: Polycomb-Associated Non-Coding RNAs.
MA566010 - JP 2018138019-A/137936: Polycomb-Associated Non-Coding RNAs.
MA445222 - JP 2018138019-A/17148: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NKD9, CC85C_HUMAN, ENST00000380243.1, ENST00000380243.2, ENST00000380243.3, ENST00000380243.4, ENST00000380243.5, ENST00000380243.6, ENST00000380243.7, ENST00000380243.8, NM_001144995, uc318plx.1, uc318plx.2
UCSC ID: ENST00000380243.9_8
RefSeq Accession: NM_001144995.2
Protein: A6NKD9 (aka CC85C_HUMAN)

-  Gene Model Information
  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.