Ccdc117 (coiled-coil domain containing 117) - Rat Genome Database

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Gene: Ccdc117 (coiled-coil domain containing 117) Rattus norvegicus
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Symbol: Ccdc117
Name: coiled-coil domain containing 117
RGD ID: 1561762
Description: Predicted to be involved in positive regulation of DNA repair and positive regulation of cell population proliferation. Predicted to be located in mitotic spindle. Orthologous to human CCDC117 (coiled-coil domain containing 117); INTERACTS WITH 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: coiled-coil domain-containing protein 117; LOC498404; similar to cDNA sequence BC018601
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81484,614,282 - 84,623,648 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1484,614,283 - 84,624,087 (-)EnsemblGRCr8
mRatBN7.21480,399,236 - 80,409,824 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1480,400,294 - 80,409,659 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1484,802,537 - 84,811,906 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01486,042,655 - 86,052,024 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01482,491,973 - 82,501,342 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01485,763,396 - 85,772,762 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1485,763,397 - 85,772,762 (-)Ensemblrn6Rnor6.0
Rnor_5.01486,433,499 - 86,442,865 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41486,161,551 - 86,170,917 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1479,285,994 - 79,295,359 (-)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitotic spindle  (ISO,ISS)
nucleus  (IEA)
spindle  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:16778019  


Genomics

Comparative Map Data
Ccdc117
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81484,614,282 - 84,623,648 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1484,614,283 - 84,624,087 (-)EnsemblGRCr8
mRatBN7.21480,399,236 - 80,409,824 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1480,400,294 - 80,409,659 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1484,802,537 - 84,811,906 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01486,042,655 - 86,052,024 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01482,491,973 - 82,501,342 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01485,763,396 - 85,772,762 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1485,763,397 - 85,772,762 (-)Ensemblrn6Rnor6.0
Rnor_5.01486,433,499 - 86,442,865 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41486,161,551 - 86,170,917 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1479,285,994 - 79,295,359 (-)NCBICelera
Cytogenetic Map14q21NCBI
CCDC117
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382228,772,695 - 28,789,301 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2228,772,674 - 28,789,301 (+)Ensemblhg38GRCh38
GRCh372229,168,683 - 29,185,289 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362227,498,707 - 27,515,278 (+)NCBIBuild 36Build 36hg18NCBI36
Celera2212,968,632 - 12,985,253 (+)NCBICelera
Cytogenetic Map22q12.1NCBI
HuRef2212,133,904 - 12,150,198 (+)NCBIHuRef
CHM1_12229,127,700 - 29,144,317 (+)NCBICHM1_1
T2T-CHM13v2.02229,234,314 - 29,250,593 (+)NCBIT2T-CHM13v2.0
Ccdc117
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39115,478,887 - 5,492,217 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl115,478,887 - 5,492,187 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38115,528,887 - 5,542,217 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl115,528,887 - 5,542,187 (-)Ensemblmm10GRCm38
MGSCv37115,428,890 - 5,442,220 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36115,428,890 - 5,442,158 (-)NCBIMGSCv36mm8
Celera116,021,879 - 6,035,212 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map113.61NCBI
Ccdc117
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554553,019,710 - 3,034,559 (+)Ensembl
ChiLan1.0NW_0049554553,019,373 - 3,034,891 (+)NCBIChiLan1.0ChiLan1.0
CCDC117
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22338,771,371 - 38,820,588 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12241,470,110 - 41,519,333 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0229,841,876 - 9,891,088 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12227,544,719 - 27,593,279 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2227,544,719 - 27,561,144 (+)EnsemblpanPan2panpan1.1
CCDC117
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12622,145,773 - 22,158,835 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2622,145,775 - 22,156,449 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2622,017,391 - 22,030,425 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02622,519,163 - 22,532,191 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2622,519,113 - 22,532,188 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12622,229,499 - 22,242,525 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02622,492,908 - 22,505,980 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02622,555,725 - 22,568,801 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ccdc117
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118112,982,165 - 112,994,275 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366572,876,408 - 2,888,566 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366572,876,417 - 2,888,542 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC117
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1445,995,586 - 46,008,290 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11445,995,628 - 46,008,290 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CCDC117
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11911,650,223 - 11,665,354 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1911,650,243 - 11,666,009 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666045114,488,416 - 114,503,648 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc117
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247475,103,407 - 5,120,336 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247475,103,502 - 5,119,726 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ccdc117
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11174,474,240 - 74,485,291 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ccdc117
72 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:760
Count of miRNA genes:316
Interacting mature miRNAs:421
Transcripts:ENSRNOT00000015627
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631213Bw60Body weight QTL604.51retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)1484164970100078267Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147764007196755654Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1477914838104348525Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147297021087582095Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1474255551109089856Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)147764007196755654Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1477640071100078267Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1474255551109089856Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)147764007196755654Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147764007196755654Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000015627   ⟹   ENSRNOP00000015627
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1484,614,283 - 84,624,087 (-)Ensembl
mRatBN7.2 Ensembl1480,400,294 - 80,409,659 (-)Ensembl
Rnor_6.0 Ensembl1485,763,397 - 85,772,762 (-)Ensembl
RefSeq Acc Id: NM_001017502   ⟹   NP_001017502
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81484,614,282 - 84,623,648 (-)NCBI
mRatBN7.21480,400,293 - 80,409,659 (-)NCBI
Rnor_6.01485,763,396 - 85,772,762 (-)NCBI
Rnor_5.01486,433,499 - 86,442,865 (-)NCBI
RGSC_v3.41486,161,551 - 86,170,917 (-)RGD
Celera1479,285,994 - 79,295,359 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001017502 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH87119 (Get FASTA)   NCBI Sequence Viewer  
  EDM00290 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000015627.3
GenBank Protein Q5M9G5 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001017502   ⟸   NM_001017502
- UniProtKB: Q5M9G5 (UniProtKB/Swiss-Prot),   A6IKM6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000015627   ⟸   ENSRNOT00000015627

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5M9G5-F1-model_v2 AlphaFold Q5M9G5 1-277 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13699457
Promoter ID:EPDNEW_R9981
Type:multiple initiation site
Name:Ccdc117_1
Description:coiled-coil domain containing 117
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01485,772,840 - 85,772,900EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561762 AgrOrtholog
BioCyc Gene G2FUF-15139 BioCyc
Ensembl Genes ENSRNOG00000010706 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015627.5 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7097247 IMAGE-MGC_LOAD
InterPro CCDC117 UniProtKB/Swiss-Prot
KEGG Report rno:498404 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94764 IMAGE-MGC_LOAD
NCBI Gene 498404 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 117 UniProtKB/Swiss-Prot
  PTHR36128 UniProtKB/Swiss-Prot
Pfam CCDC117 UniProtKB/Swiss-Prot
PhenoGen Ccdc117 PhenoGen
RatGTEx ENSRNOG00000010706 RatGTEx
UniProt A6IKM6 ENTREZGENE, UniProtKB/TrEMBL
  CC117_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Ccdc117  coiled-coil domain containing 117  LOC498404  similar to cDNA sequence BC018601  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC498404  similar to cDNA sequence BC018601      Symbol and Name status set to provisional 70820 PROVISIONAL