CCDC66 (coiled-coil domain containing 66) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: CCDC66 (coiled-coil domain containing 66) Chlorocebus sabaeus
Analyze
Symbol: CCDC66
Name: coiled-coil domain containing 66
RGD ID: 18399783
Description: ENCODES a protein that exhibits microtubule binding (inferred); protein homodimerization activity (inferred); INVOLVED IN retina homeostasis (ortholog); ASSOCIATED WITH genetic disease (ortholog); retinal degeneration (ortholog); retinitis pigmentosa (ortholog); FOUND IN ciliary transition zone (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: coiled-coil domain-containing protein 66
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12217,902,132 - 17,958,962 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2217,909,006 - 17,963,527 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
CCDC66
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12217,902,132 - 17,958,962 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2217,909,006 - 17,963,527 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CCDC66
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38356,557,156 - 56,621,837 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl356,557,161 - 56,621,837 (+)EnsemblGRCh38hg38GRCh38
GRCh37356,591,184 - 56,655,865 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36356,566,231 - 56,630,876 (+)NCBINCBI36Build 36hg18NCBI36
Celera356,557,122 - 56,621,599 (+)NCBICelera
Cytogenetic Map3p14.3NCBI
HuRef356,639,978 - 56,704,257 (+)NCBIHuRef
CHM1_1356,541,909 - 56,606,605 (+)NCBICHM1_1
T2T-CHM13v2.0356,597,679 - 56,662,164 (+)NCBIT2T-CHM13v2.0
Ccdc66
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391427,203,047 - 27,230,467 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1427,203,047 - 27,230,417 (-)EnsemblGRCm39 Ensembl
GRCm381427,481,090 - 27,508,510 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1427,481,090 - 27,508,460 (-)EnsemblGRCm38mm10GRCm38
MGSCv371428,295,587 - 28,321,646 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361426,309,285 - 26,335,344 (-)NCBIMGSCv36mm8
Celera1423,714,021 - 23,740,767 (-)NCBICelera
Cytogenetic Map14A3NCBI
cM Map1416.51NCBI
Ccdc66
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8162,668,810 - 2,700,717 (-)NCBIGRCr8
mRatBN7.2162,662,125 - 2,694,031 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl162,662,131 - 2,694,023 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0163,107,119 - 3,139,188 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl163,110,239 - 3,139,177 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0163,074,622 - 3,107,108 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4162,747,032 - 2,776,544 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera162,626,955 - 2,658,821 (-)NCBICelera
Cytogenetic Map16p16NCBI
Ccdc66
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554306,402,701 - 6,439,985 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554306,402,622 - 6,440,154 (+)NCBIChiLan1.0ChiLan1.0
CCDC66
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2256,555,340 - 56,608,562 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1356,560,095 - 56,613,332 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0356,504,388 - 56,557,617 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1357,720,490 - 57,773,326 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl357,720,490 - 57,773,326 (+)Ensemblpanpan1.1panPan2
CCDC66
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12033,714,224 - 33,758,846 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2033,714,224 - 33,758,799 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2033,641,146 - 33,685,866 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02033,985,924 - 34,030,861 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2033,984,868 - 34,030,822 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12033,430,153 - 33,474,916 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02033,789,795 - 33,834,395 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02033,963,454 - 34,008,410 (-)NCBIUU_Cfam_GSD_1.0
Ccdc66
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118173,888,938 - 173,916,511 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364737,027,495 - 7,055,028 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364737,027,543 - 7,054,079 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC66
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1338,438,720 - 38,492,430 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11338,438,669 - 38,493,212 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21342,284,146 - 42,337,983 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Ccdc66
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624822617,862 - 655,803 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624822625,327 - 658,528 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 36 2 46
Low 18 14
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007984660 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984665 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984670 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984672 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007984674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003778 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003779 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038003781 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000010938   ⟹   ENSCSAP00000009023
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2217,909,006 - 17,963,527 (+)Ensembl
RefSeq Acc Id: XM_007984660   ⟹   XP_007982851
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,201 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984661   ⟹   XP_007982852
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,132 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984662   ⟹   XP_007982853
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,202 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984663   ⟹   XP_007982854
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,163 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,154 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984664   ⟹   XP_007982855
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,907,282 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,965,077 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984665   ⟹   XP_007982856
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,163 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,192 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984666   ⟹   XP_007982857
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,135 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984669   ⟹   XP_007982860
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,201 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984673   ⟹   XP_007982864
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,201 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007984674   ⟹   XP_007982865
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12217,902,201 - 17,958,962 (+)NCBI
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038003777   ⟹   XP_037859705
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666041148,913,314 - 148,968,494 (-)NCBI
RefSeq Acc Id: XM_038003778   ⟹   XP_037859706
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
RefSeq Acc Id: XM_038003779   ⟹   XP_037859707
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
RefSeq Acc Id: XM_038003781   ⟹   XP_037859709
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666041148,913,314 - 148,970,204 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_007982852   ⟸   XM_007984661
- Peptide Label: isoform X2
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982857   ⟸   XM_007984666
- Peptide Label: isoform X8
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982856   ⟸   XM_007984665
- Peptide Label: isoform X6
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982854   ⟸   XM_007984663
- Peptide Label: isoform X4
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982851   ⟸   XM_007984660
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982860   ⟸   XM_007984669
- Peptide Label: isoform X9
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982864   ⟸   XM_007984673
- Peptide Label: isoform X11
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982865   ⟸   XM_007984674
- Peptide Label: isoform X12
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982853   ⟸   XM_007984662
- Peptide Label: isoform X4
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007982855   ⟸   XM_007984664
- Peptide Label: isoform X5
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000009023   ⟸   ENSCSAT00000010938
RefSeq Acc Id: XP_037859706   ⟸   XM_038003778
- Peptide Label: isoform X7
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859709   ⟸   XM_038003781
- Peptide Label: isoform X13
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859707   ⟸   XM_038003779
- Peptide Label: isoform X10
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037859705   ⟸   XM_038003777
- Peptide Label: isoform X3
- UniProtKB: A0A0D9RK84 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000012850 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000010938.1 UniProtKB/TrEMBL
InterPro CCD66 UniProtKB/TrEMBL
  CCDC66_dom UniProtKB/TrEMBL
NCBI Gene CCDC66 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 66 UniProtKB/TrEMBL
  PTHR22736 UniProtKB/TrEMBL
Pfam CCDC66 UniProtKB/TrEMBL
UniProt A0A0D9RK84 ENTREZGENE, UniProtKB/TrEMBL