Human Gene CCDC107 (uc011lox.2) Description and Page Index
  Description: Homo sapiens coiled-coil domain containing 107 (CCDC107), transcript variant A, mRNA.
RefSeq Summary (NM_174923): This gene encodes a membrane protein which contains a coiled-coil domain in the central region. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2013].
Transcript (Including UTRs)
   Position: hg19 chr9:35,658,287-35,661,500 Size: 3,214 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr9:35,658,377-35,661,184 Size: 2,808 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:35,658,287-35,661,500)mRNA (may differ from genome)Protein (283 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CC107_HUMAN
DESCRIPTION: RecName: Full=Coiled-coil domain-containing protein 107; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
SEQUENCE CAUTION: Sequence=CAI13448.1; Type=Erroneous gene model prediction;

-  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: 54.67 RPKM in Artery - Tibial
Total median expression: 976.78 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 -47.6290-0.529 Picture PostScript Text
3' UTR -89.80316-0.284 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
  ModBase Predicted Comparative 3D Structure on Q8WV48
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
  Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK075523 - Homo sapiens cDNA PSEC0222 fis, clone HEMBA1005452.
BC051285 - Homo sapiens coiled-coil domain containing 107, mRNA (cDNA clone MGC:59953 IMAGE:6586677), complete cds.
BC018758 - Homo sapiens coiled-coil domain containing 107, mRNA (cDNA clone MGC:31967 IMAGE:4907976), complete cds.
AK307223 - Homo sapiens cDNA, FLJ97171.
JD216885 - Sequence 197909 from Patent EP1572962.
CU676316 - Synthetic construct Homo sapiens gateway clone IMAGE:100021908 5' read CCDC107 mRNA.
DQ891940 - Synthetic construct clone IMAGE:100004570; FLH181600.01X; RZPDo839F02136D coiled-coil domain containing 107 (CCDC107) gene, encodes complete protein.
DQ895126 - Synthetic construct Homo sapiens clone IMAGE:100009586; FLH181596.01L; RZPDo839F02135D coiled-coil domain containing 107 (CCDC107) gene, encodes complete protein.
KJ900433 - Synthetic construct Homo sapiens clone ccsbBroadEn_09827 CCDC107 gene, encodes complete protein.
DQ884403 - Homo sapiens clone BFC06034 hypothetical protein mRNA, complete cds.
JD253024 - Sequence 234048 from Patent EP1572962.
JD373115 - Sequence 354139 from Patent EP1572962.
JD209355 - Sequence 190379 from Patent EP1572962.
JD176523 - Sequence 157547 from Patent EP1572962.
JD456544 - Sequence 437568 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A6XND6, CC107_HUMAN, NM_174923, NP_777583, PSEC0222, Q5T4R5, Q5T4R8, Q5T4R9, Q86VB6, Q8N2E4, Q8WV48
UCSC ID: uc011lox.2
RefSeq Accession: NM_174923
Protein: Q8WV48 (aka CC107_HUMAN)
CCDS: CCDS6583.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_174923.2
exon count: 5CDS single in 3' UTR: no RNA size: 1272
ORF size: 852CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1472.50frame shift in genome: no % Coverage: 98.90
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 645# 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.