Human Gene CORO6 (ENST00000345068.9_6) from GENCODE V47lift37
  Description: coronin 6, transcript variant 9 (from RefSeq NM_001388437.1)
Gencode Transcript: ENST00000345068.9_6
Gencode Gene: ENSG00000167549.19_13
Transcript (Including UTRs)
   Position: hg19 chr17:27,941,780-27,949,917 Size: 8,138 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr17:27,942,750-27,948,439 Size: 5,690 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray 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 (chr17:27,941,780-27,949,917)mRNA (may differ from genome)Protein (472 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsHGNCMGI
PubMedUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: CORO6_HUMAN
DESCRIPTION: RecName: Full=Coronin-6; AltName: Full=Coronin-like protein E; Short=Clipin-E;
SIMILARITY: Contains 5 WD repeats.
SEQUENCE CAUTION: Sequence=AAG22467.1; Type=Erroneous translation; Note=Wrong choice of frame; Sequence=BAG53288.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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: 170.91 RPKM in Muscle - Skeletal
Total median expression: 866.26 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 -91.40214-0.427 Picture PostScript Text
3' UTR -422.10970-0.435 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
IPR015505 - Coronin
IPR015048 - DUF1899
IPR015049 - DUF1900
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR019775 - WD40_repeat_CS
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF00400 - WD domain, G-beta repeat
PF08953 - Domain of unknown function (DUF1899)
PF12894 - Anaphase-promoting complex subunit 4 WD40 domain
PF16300 - Type of WD40 repeat

SCOP Domains:
50952 - Soluble quinoprotein glucose dehydrogenase
50956 - Thermostable phytase (3-phytase)
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Peptidase/esterase 'gauge' domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like

ModBase Predicted Comparative 3D Structure on Q6QEF8
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0051015 actin filament binding

Biological Process:
GO:0030036 actin cytoskeleton organization

Cellular Component:
GO:0015629 actin cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  AK092430 - Homo sapiens cDNA FLJ35111 fis, clone PLACE6007180, highly similar to Coronin-6.
AX747542 - Sequence 1067 from Patent EP1308459.
AK096431 - Homo sapiens cDNA FLJ39112 fis, clone NTONG2005657, highly similar to Coronin-6.
BC028205 - Homo sapiens cDNA clone IMAGE:5200275, with apparent retained intron.
AF193039 - Homo sapiens PP1009 mRNA, complete cds.
AK027777 - Homo sapiens cDNA FLJ14871 fis, clone PLACE1002591, moderately similar to CORONIN-LIKE PROTEIN P57.
AK094683 - Homo sapiens cDNA FLJ37364 fis, clone BRAMY2024247, highly similar to Coronin-6.
AF447885 - Homo sapiens PP1881 mRNA, complete cds.
BC048209 - Homo sapiens coronin 6, mRNA (cDNA clone IMAGE:5093610).
BC064514 - Homo sapiens coronin 6, mRNA (cDNA clone MGC:71188 IMAGE:3678185), complete cds.
AL833952 - Homo sapiens mRNA; cDNA DKFZp761F1114 (from clone DKFZp761F1114).
AF447884 - Homo sapiens PP1782 mRNA, complete cds.
JD316250 - Sequence 297274 from Patent EP1572962.
JD153973 - Sequence 134997 from Patent EP1572962.
JD330583 - Sequence 311607 from Patent EP1572962.
JD527988 - Sequence 509012 from Patent EP1572962.
JD106500 - Sequence 87524 from Patent EP1572962.
JD047236 - Sequence 28260 from Patent EP1572962.
JD480281 - Sequence 461305 from Patent EP1572962.
JD486315 - Sequence 467339 from Patent EP1572962.
JD488983 - Sequence 470007 from Patent EP1572962.
JD294693 - Sequence 275717 from Patent EP1572962.
JD165585 - Sequence 146609 from Patent EP1572962.
JD108602 - Sequence 89626 from Patent EP1572962.
JD540697 - Sequence 521721 from Patent EP1572962.
JD257568 - Sequence 238592 from Patent EP1572962.
LF209200 - JP 2014500723-A/16703: Polycomb-Associated Non-Coding RNAs.
JD060743 - Sequence 41767 from Patent EP1572962.
AY545070 - Homo sapiens unknown mRNA.
KJ903494 - Synthetic construct Homo sapiens clone ccsbBroadEn_12888 CORO6 gene, encodes complete protein.
AB527657 - Synthetic construct DNA, clone: pF1KE1013, Homo sapiens CORO6 gene for coronin 6, without stop codon, in Flexi system.
CU687886 - Synthetic construct Homo sapiens gateway clone IMAGE:100022379 5' read CORO6 mRNA.
LF326778 - JP 2014500723-A/134281: Polycomb-Associated Non-Coding RNAs.
LF326777 - JP 2014500723-A/134280: Polycomb-Associated Non-Coding RNAs.
MA562355 - JP 2018138019-A/134281: Polycomb-Associated Non-Coding RNAs.
MA562354 - JP 2018138019-A/134280: Polycomb-Associated Non-Coding RNAs.
MA444777 - JP 2018138019-A/16703: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KU26, CORO6_HUMAN, ENST00000345068.1, ENST00000345068.2, ENST00000345068.3, ENST00000345068.4, ENST00000345068.5, ENST00000345068.6, ENST00000345068.7, ENST00000345068.8, NM_001388437, PP1009, PP1782, PP1881, Q6QEF8, Q71MF3, Q8WYH7, Q96K02, uc317xdz.1
UCSC ID: ENST00000345068.9_6
RefSeq Accession: NM_001388431.1
Protein: Q6QEF8 (aka CORO6_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.