Human Gene CCDC68 (uc002lfs.3) Description and Page Index
  Description: Homo sapiens coiled-coil domain containing 68 (CCDC68), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr18:52,568,740-52,625,279 Size: 56,540 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr18:52,571,589-52,610,022 Size: 38,434 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:52,568,740-52,625,279)mRNA (may differ from genome)Protein (335 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CCD68_HUMAN
DESCRIPTION: RecName: Full=Coiled-coil domain-containing protein 68; AltName: Full=Cutaneous T-cell lymphoma-associated antigen se57-1; Short=CTCL-associated antigen se57-1;
TISSUE SPECIFICITY: Expressed in bone marrow, colon, small intestine, spleen, testis, trachea and cutaneous T-cell lymphoma (CTCL).

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CCDC68
CDC HuGE Published Literature: CCDC68
Positive Disease Associations: Coronary Artery Disease
Related Studies:
  1. Coronary Artery Disease
    , , . [PubMed 0]

-  MalaCards Disease Associations
  MalaCards Gene Search: CCDC68
Diseases sorted by gene-association score: cutaneous t cell lymphoma (16)

-  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: 10.53 RPKM in Small Intestine - Terminal Ileum
Total median expression: 98.85 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 -36.90172-0.215 Picture PostScript Text
3' UTR -711.852849-0.250 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
IPR026735 - Ccdc68

ModBase Predicted Comparative 3D Structure on Q9H2F9
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 Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0008104 protein localization
GO:0034454 microtubule anchoring at centrosome

Cellular Component:
GO:0005737 cytoplasm
GO:0005814 centriole
GO:0005856 cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  AF273051 - Homo sapiens CTCL tumor antigen se57-1 mRNA, complete cds.
JD516180 - Sequence 497204 from Patent EP1572962.
JD422318 - Sequence 403342 from Patent EP1572962.
JD556187 - Sequence 537211 from Patent EP1572962.
JD440761 - Sequence 421785 from Patent EP1572962.
JD241129 - Sequence 222153 from Patent EP1572962.
JD255480 - Sequence 236504 from Patent EP1572962.
JD315564 - Sequence 296588 from Patent EP1572962.
JD300590 - Sequence 281614 from Patent EP1572962.
JD224080 - Sequence 205104 from Patent EP1572962.
JD361979 - Sequence 343003 from Patent EP1572962.
JD121032 - Sequence 102056 from Patent EP1572962.
JD262700 - Sequence 243724 from Patent EP1572962.
JD261337 - Sequence 242361 from Patent EP1572962.
JD552135 - Sequence 533159 from Patent EP1572962.
JD280773 - Sequence 261797 from Patent EP1572962.
JD081991 - Sequence 63015 from Patent EP1572962.
JD343439 - Sequence 324463 from Patent EP1572962.
JD363851 - Sequence 344875 from Patent EP1572962.
JD503732 - Sequence 484756 from Patent EP1572962.
JD277498 - Sequence 258522 from Patent EP1572962.
JD355961 - Sequence 336985 from Patent EP1572962.
JD506998 - Sequence 488022 from Patent EP1572962.
BC029508 - Homo sapiens coiled-coil domain containing 68, mRNA (cDNA clone MGC:33688 IMAGE:5297655), complete cds.
AK058097 - Homo sapiens cDNA FLJ25368 fis, clone TST01809.
JD355786 - Sequence 336810 from Patent EP1572962.
JD114490 - Sequence 95514 from Patent EP1572962.
JD423316 - Sequence 404340 from Patent EP1572962.
AK313793 - Homo sapiens cDNA, FLJ94407, highly similar to Homo sapiens CTCL tumor antigen se57-1 (SE57-1), mRNA.
HQ447181 - Synthetic construct Homo sapiens clone IMAGE:100070474; CCSB002199_04 coiled-coil domain containing 68 (CCDC68) gene, encodes complete protein.
KJ899635 - Synthetic construct Homo sapiens clone ccsbBroadEn_09029 CCDC68 gene, encodes complete protein.
CU688676 - Synthetic construct Homo sapiens gateway clone IMAGE:100018126 5' read CCDC68 mRNA.
JD359259 - Sequence 340283 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R9I3, CCD68_HUMAN, NM_001143829, NP_079490, Q9H2F9
UCSC ID: uc002lfs.3
RefSeq Accession: NM_001143829
Protein: Q9H2F9 (aka CCD68_HUMAN)
CCDS: CCDS11959.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001143829.1
exon count: 12CDS single in 3' UTR: no RNA size: 4033
ORF size: 1008CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2127.00frame shift in genome: no % Coverage: 99.90
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.