Ccdc178 (coiled-coil domain containing 178) - Rat Genome Database

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Gene: Ccdc178 (coiled-coil domain containing 178) Rattus norvegicus
Analyze
Symbol: Ccdc178
Name: coiled-coil domain containing 178
RGD ID: 1308160
Description: Predicted to be located in ciliary basal body. Orthologous to human CCDC178 (coiled-coil domain containing 178); INTERACTS WITH bisphenol A; indole-3-methanol; vinclozolin.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: coiled-coil domain-containing protein 178; LOC102555652; LOC307556; RGD1308160; similar to Myosin heavy chain A (MHC A); uncharacterized LOC102555652
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81813,349,795 - 13,747,083 (-)NCBIGRCr8
mRatBN7.21813,074,834 - 13,472,732 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1813,075,468 - 13,472,160 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01812,796,155 - 13,199,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1812,796,195 - 13,194,952 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01812,788,146 - 12,958,891 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41813,440,195 - 13,817,915 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11813,466,840 - 14,028,711 (-)NCBI
Celera1813,053,917 - 13,450,440 (-)NCBICelera
Cytogenetic Map18p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Ccdc178
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81813,349,795 - 13,747,083 (-)NCBIGRCr8
mRatBN7.21813,074,834 - 13,472,732 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1813,075,468 - 13,472,160 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01812,796,155 - 13,199,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1812,796,195 - 13,194,952 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01812,788,146 - 12,958,891 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41813,440,195 - 13,817,915 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11813,466,840 - 14,028,711 (-)NCBI
Celera1813,053,917 - 13,450,440 (-)NCBICelera
Cytogenetic Map18p12NCBI
CCDC178
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381832,937,406 - 33,441,040 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1832,937,402 - 33,441,101 (-)EnsemblGRCh38hg38GRCh38
GRCh371830,517,370 - 31,021,004 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361828,771,364 - 29,274,683 (-)NCBINCBI36Build 36hg18NCBI36
Build 341828,771,586 - 29,274,683NCBI
Celera1827,325,560 - 27,828,679 (-)NCBICelera
Cytogenetic Map18q12.1NCBI
HuRef1827,375,985 - 27,880,080 (-)NCBIHuRef
CHM1_11830,445,087 - 30,948,305 (-)NCBICHM1_1
T2T-CHM13v2.01833,129,211 - 33,632,807 (-)NCBIT2T-CHM13v2.0
Ccdc178
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391821,943,954 - 22,304,453 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1821,943,950 - 22,304,499 (-)EnsemblGRCm39 Ensembl
GRCm381821,810,897 - 22,171,396 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1821,810,893 - 22,171,442 (-)EnsemblGRCm38mm10GRCm38
MGSCv371821,969,398 - 22,329,897 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361821,953,907 - 22,314,406 (-)NCBIMGSCv36mm8
Celera1822,312,161 - 22,671,219 (-)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1811.96NCBI
Ccdc178
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540220,076,826 - 20,429,151 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540220,076,834 - 20,429,089 (-)NCBIChiLan1.0ChiLan1.0
CCDC178
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21750,309,597 - 50,813,056 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11836,002,194 - 36,505,653 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01826,140,067 - 26,643,526 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11829,732,628 - 30,235,968 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1829,733,237 - 30,206,721 (-)Ensemblpanpan1.1panPan2
CCDC178
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1756,405,081 - 56,831,787 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl756,404,878 - 56,831,558 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha755,838,729 - 56,264,751 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0756,375,558 - 56,806,303 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl756,375,480 - 56,806,074 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1756,061,670 - 56,491,602 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0756,083,209 - 56,509,498 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0756,379,182 - 56,805,441 (+)NCBIUU_Cfam_GSD_1.0
Ccdc178
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494452,116,768 - 52,457,791 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936682117,455 - 459,368 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC178
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6116,764,203 - 117,202,212 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16116,765,040 - 117,187,000 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CCDC178
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11847,296,216 - 47,805,502 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1847,339,825 - 47,637,251 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605021,819,082 - 22,042,170 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc178
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247797,726,526 - 7,998,593 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccdc178
3266 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:108
Count of miRNA genes:97
Interacting mature miRNAs:102
Transcripts:ENSRNOT00000050933
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301410Bp317Blood pressure QTL 3170.004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194427326548295Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181194429959330563Rat
61382Bp46Blood pressure QTL 4618.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194179131393320Rat
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
1331781Scl28Serum cholesterol level QTL 283.995blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)181194429924797117Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194454459796478Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18518585840503530Rat
1331766Bp236Blood pressure QTL 2363.022arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194429931359530Rat
631264Scl22Serum cholesterol level QTL 226.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)181194179131393320Rat
12904680Bw189Body weight QTL 1890.019body mass (VT:0001259)body weight (CMO:0000012)181194427326548295Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18224947722066430Rat
12904693Am20Aortic mass QTL 200.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)181194427326548295Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
12904695Kidm73Kidney mass QTL 730.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)181194427326548295Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
12904689Cm128Cardiac mass QTL 1280.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)181194427326548295Rat
12904690Cm129Cardiac mass QTL 1290.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)181194427326548295Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
12904691Cm130Cardiac mass QTL 1300.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)181194427326548295Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194429952293055Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)181194429941122201Rat

Markers in Region
AU047997  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21813,125,630 - 13,125,810 (+)MAPPERmRatBN7.2
Rnor_6.01812,846,520 - 12,846,699NCBIRnor6.0
Rnor_5.01812,634,253 - 12,634,432UniSTSRnor5.0
RGSC_v3.41813,491,148 - 13,491,327UniSTSRGSC3.4
Celera1813,104,436 - 13,104,615UniSTS
Cytogenetic Map18p12UniSTS


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

integumental system musculoskeletal system nervous system renal system reproductive system appendage
High
Medium 7
Low 1
Below cutoff 2 2 2 2 4 2

Sequence


RefSeq Acc Id: ENSRNOT00000050933   ⟹   ENSRNOP00000042594
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1813,075,468 - 13,472,160 (-)Ensembl
Rnor_6.0 Ensembl1813,018,620 - 13,183,263 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092925   ⟹   ENSRNOP00000075939
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1812,796,195 - 13,194,952 (-)Ensembl
RefSeq Acc Id: XM_017601075   ⟹   XP_017456564
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81813,349,795 - 13,747,083 (-)NCBI
mRatBN7.21813,074,834 - 13,472,732 (-)NCBI
Rnor_6.01812,796,156 - 13,199,923 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_017456564 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL76111 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000042594.6
RefSeq Acc Id: XP_017456564   ⟸   XM_017601075
- UniProtKB: F1M3U7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000075939   ⟸   ENSRNOT00000092925
RefSeq Acc Id: ENSRNOP00000042594   ⟸   ENSRNOT00000050933

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A1B0GWL4-F1-model_v2 AlphaFold A0A1B0GWL4 1-866 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308160 AgrOrtholog
BioCyc Gene G2FUF-8195 BioCyc
Ensembl Genes ENSRNOG00000022156 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050933.6 UniProtKB/TrEMBL
InterPro CCDC178 UniProtKB/TrEMBL
KEGG Report rno:307556 UniProtKB/TrEMBL
NCBI Gene 307556 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 178 UniProtKB/TrEMBL
  PTHR35088 UniProtKB/TrEMBL
PhenoGen Ccdc178 PhenoGen
RatGTEx ENSRNOG00000022156 RatGTEx
UniProt F1M3U7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 Ccdc178  coiled-coil domain containing 178  LOC102555652  uncharacterized LOC102555652  Data merged from RGD:7578012 737654 PROVISIONAL
2013-12-18 LOC102555652  uncharacterized LOC102555652      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-10-24 Ccdc178  coiled-coil domain containing 178  RGD1308160  similar to Myosin heavy chain A (MHC A)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1308160  similar to Myosin heavy chain A (MHC A)   RGD1308160_predicted  similar to Myosin heavy chain A (MHC A) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1308160_predicted  similar to Myosin heavy chain A (MHC A) (predicted)  LOC307556_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC307556_predicted  similar to Myosin heavy chain A (MHC A) (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL