Human Gene CCDC47 (ENST00000225726.10)
  Description: Homo sapiens coiled-coil domain containing 47 (CCDC47), mRNA. (from RefSeq NM_020198)
Gencode Transcript: ENST00000225726.10
Gencode Gene: ENSG00000108588.14
Transcript (Including UTRs)
   Position: hg38 chr17:63,745,255-63,773,597 Size: 28,343 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg38 chr17:63,746,881-63,766,175 Size: 19,295 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Methods
Data last updated at UCSC: 2021-01-14 15:32:12

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:63,745,255-63,773,597)mRNA (may differ from genome)Protein (483 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: CCD47_HUMAN
DESCRIPTION: RecName: Full=Coiled-coil domain-containing protein 47; Flags: Precursor;
INTERACTION: Q99J34:Irak1 (xeno); NbExp=2; IntAct=EBI-720151, EBI-6117042; Q92985:IRF7; NbExp=2; IntAct=EBI-720151, EBI-968267; Q6PDS3:Sarm1 (xeno); NbExp=2; IntAct=EBI-720151, EBI-6117196; P58753:TIRAP; NbExp=2; IntAct=EBI-720151, EBI-528644; Q86WV6:TMEM173; NbExp=2; IntAct=EBI-720151, EBI-2800345;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
SEQUENCE CAUTION: Sequence=AAG39292.1; Type=Frameshift; Positions=306;

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 32.52 RPKM in Adrenal Gland
Total median expression: 1050.62 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 -90.40205-0.441 Picture PostScript Text
3' UTR -409.001626-0.252 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
IPR012879 - DUF1682

Pfam Domains:
PF07946 - Protein of unknown function (DUF1682)

ModBase Predicted Comparative 3D Structure on Q96A33
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-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005509 calcium ion binding
GO:0005515 protein binding

Biological Process:
GO:0001649 osteoblast differentiation
GO:0006983 ER overload response
GO:0007029 endoplasmic reticulum organization
GO:0009791 post-embryonic development
GO:0030433 ER-associated ubiquitin-dependent protein catabolic process
GO:0055074 calcium ion homeostasis

Cellular Component:
GO:0005783 endoplasmic reticulum
GO:0005791 rough endoplasmic reticulum
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AF226054 - Homo sapiens GK001 (GK001) mRNA, complete cds.
BC001300 - Homo sapiens coiled-coil domain containing 47, mRNA (cDNA clone IMAGE:3451856).
AX810707 - Sequence 31 from Patent EP1333092.
AK225813 - Homo sapiens mRNA for hypothetical protein LOC57003 variant, clone: FCC129D09.
JD345074 - Sequence 326098 from Patent EP1572962.
JD349488 - Sequence 330512 from Patent EP1572962.
LF328243 - JP 2014500723-A/135746: Polycomb-Associated Non-Coding RNAs.
MA563820 - JP 2018138019-A/135746: Polycomb-Associated Non-Coding RNAs.
JD299772 - Sequence 280796 from Patent EP1572962.
JD200496 - Sequence 181520 from Patent EP1572962.
JD370911 - Sequence 351935 from Patent EP1572962.
JD234778 - Sequence 215802 from Patent EP1572962.
LF328244 - JP 2014500723-A/135747: Polycomb-Associated Non-Coding RNAs.
MA563821 - JP 2018138019-A/135747: Polycomb-Associated Non-Coding RNAs.
JD295347 - Sequence 276371 from Patent EP1572962.
JD075658 - Sequence 56682 from Patent EP1572962.
LF328245 - JP 2014500723-A/135748: Polycomb-Associated Non-Coding RNAs.
MA563822 - JP 2018138019-A/135748: Polycomb-Associated Non-Coding RNAs.
LF328246 - JP 2014500723-A/135749: Polycomb-Associated Non-Coding RNAs.
MA563823 - JP 2018138019-A/135749: Polycomb-Associated Non-Coding RNAs.
JD164659 - Sequence 145683 from Patent EP1572962.
JD402874 - Sequence 383898 from Patent EP1572962.
JD089812 - Sequence 70836 from Patent EP1572962.
JD354914 - Sequence 335938 from Patent EP1572962.
LF328247 - JP 2014500723-A/135750: Polycomb-Associated Non-Coding RNAs.
MA563824 - JP 2018138019-A/135750: Polycomb-Associated Non-Coding RNAs.
LF328248 - JP 2014500723-A/135751: Polycomb-Associated Non-Coding RNAs.
MA563825 - JP 2018138019-A/135751: Polycomb-Associated Non-Coding RNAs.
BC013600 - Homo sapiens coiled-coil domain containing 47, mRNA (cDNA clone IMAGE:3865335), partial cds.
AK027844 - Homo sapiens cDNA FLJ14938 fis, clone PLACE1010622, weakly similar to TROPONIN T, CARDIAC MUSCLE ISOFORMS.
JD092559 - Sequence 73583 from Patent EP1572962.
E10513 - cDNA encoding protein which is produced by glioblastoma.
AK075387 - Homo sapiens cDNA PSEC0077 fis, clone NT2RP2003902, highly similar to GK001 protein.
BC008905 - Homo sapiens coiled-coil domain containing 47, mRNA (cDNA clone MGC:15096 IMAGE:3688068), complete cds.
AF113221 - Homo sapiens MSTP041 mRNA, complete cds.
LF328249 - JP 2014500723-A/135752: Polycomb-Associated Non-Coding RNAs.
MA563826 - JP 2018138019-A/135752: Polycomb-Associated Non-Coding RNAs.
LF328250 - JP 2014500723-A/135753: Polycomb-Associated Non-Coding RNAs.
MA563827 - JP 2018138019-A/135753: Polycomb-Associated Non-Coding RNAs.
JD263714 - Sequence 244738 from Patent EP1572962.
JD375522 - Sequence 356546 from Patent EP1572962.
LF328251 - JP 2014500723-A/135754: Polycomb-Associated Non-Coding RNAs.
MA563828 - JP 2018138019-A/135754: Polycomb-Associated Non-Coding RNAs.
JD455699 - Sequence 436723 from Patent EP1572962.
JD334961 - Sequence 315985 from Patent EP1572962.
JD047060 - Sequence 28084 from Patent EP1572962.
AK314328 - Homo sapiens cDNA, FLJ95088, highly similar to Homo sapiens GK001 protein (GK001), mRNA.
KJ899289 - Synthetic construct Homo sapiens clone ccsbBroadEn_08683 CCDC47 gene, encodes complete protein.
DQ896573 - Synthetic construct Homo sapiens clone IMAGE:100011033; FLH195552.01L; RZPDo839D09151D coiled-coil domain containing 47 (CCDC47) gene, encodes complete protein.
AK027786 - Homo sapiens cDNA FLJ14880 fis, clone PLACE1003369.
LF328252 - JP 2014500723-A/135755: Polycomb-Associated Non-Coding RNAs.
MA563829 - JP 2018138019-A/135755: Polycomb-Associated Non-Coding RNAs.
LF328253 - JP 2014500723-A/135756: Polycomb-Associated Non-Coding RNAs.
MA563830 - JP 2018138019-A/135756: Polycomb-Associated Non-Coding RNAs.
LF328254 - JP 2014500723-A/135757: Polycomb-Associated Non-Coding RNAs.
MA563831 - JP 2018138019-A/135757: Polycomb-Associated Non-Coding RNAs.
LF328255 - JP 2014500723-A/135758: Polycomb-Associated Non-Coding RNAs.
MA563832 - JP 2018138019-A/135758: Polycomb-Associated Non-Coding RNAs.
LF328256 - JP 2014500723-A/135759: Polycomb-Associated Non-Coding RNAs.
MA563833 - JP 2018138019-A/135759: Polycomb-Associated Non-Coding RNAs.
CU679179 - Synthetic construct Homo sapiens gateway clone IMAGE:100017354 5' read CCDC47 mRNA.
LF328259 - JP 2014500723-A/135762: Polycomb-Associated Non-Coding RNAs.
MA563836 - JP 2018138019-A/135762: Polycomb-Associated Non-Coding RNAs.
LF328261 - JP 2014500723-A/135764: Polycomb-Associated Non-Coding RNAs.
MA563838 - JP 2018138019-A/135764: Polycomb-Associated Non-Coding RNAs.
LF328262 - JP 2014500723-A/135765: Polycomb-Associated Non-Coding RNAs.
MA563839 - JP 2018138019-A/135765: Polycomb-Associated Non-Coding RNAs.
LF328263 - JP 2014500723-A/135766: Polycomb-Associated Non-Coding RNAs.
MA563840 - JP 2018138019-A/135766: Polycomb-Associated Non-Coding RNAs.
LF328264 - JP 2014500723-A/135767: Polycomb-Associated Non-Coding RNAs.
MA563841 - JP 2018138019-A/135767: Polycomb-Associated Non-Coding RNAs.
LF328265 - JP 2014500723-A/135768: Polycomb-Associated Non-Coding RNAs.
MA563842 - JP 2018138019-A/135768: Polycomb-Associated Non-Coding RNAs.
LF328266 - JP 2014500723-A/135769: Polycomb-Associated Non-Coding RNAs.
MA563843 - JP 2018138019-A/135769: Polycomb-Associated Non-Coding RNAs.
JD458019 - Sequence 439043 from Patent EP1572962.
JD455400 - Sequence 436424 from Patent EP1572962.
LF328267 - JP 2014500723-A/135770: Polycomb-Associated Non-Coding RNAs.
MA563844 - JP 2018138019-A/135770: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RAS8, CCD47_HUMAN, D3DU20, ENST00000225726.1, ENST00000225726.2, ENST00000225726.3, ENST00000225726.4, ENST00000225726.5, ENST00000225726.6, ENST00000225726.7, ENST00000225726.8, ENST00000225726.9, GK001, MSTP041, NM_020198, PSEC0077, Q96A33, Q96D00, Q96JZ7, Q9H3E4, Q9NRG3, uc002jbs.1, uc002jbs.2, uc002jbs.3, uc002jbs.4, uc002jbs.5, uc002jbs.6
UCSC ID: ENST00000225726.10
RefSeq Accession: NM_020198
Protein: Q96A33 (aka CCD47_HUMAN)
CCDS: CCDS11643.1

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