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 Genes
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
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
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor surface area measurement (CMO:0002078)18224947722066430Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18224947722066430Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18518585840503530Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
61382Bp46Blood pressure QTL 4618.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194179131393320Rat
631264Scl22Serum cholesterol level QTL 226.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)181194179131393320Rat
12904690Cm129Cardiac mass QTL 1290.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)181194427326548295Rat
12904689Cm128Cardiac mass QTL 1280.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)181194427326548295Rat
12904693Am20Aortic mass QTL 200.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)181194427326548295Rat
12904695Kidm73Kidney mass QTL 730.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)181194427326548295Rat
12904691Cm130Cardiac mass QTL 1300.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)181194427326548295Rat
12904680Bw189Body weight QTL 1890.019body mass (VT:0001259)body weight (CMO:0000012)181194427326548295Rat
2301410Bp317Blood pressure QTL 3170.004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194427326548295Rat
1331781Scl28Serum cholesterol level QTL 283.995blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)181194429924797117Rat
1331766Bp236Blood pressure QTL 2363.022arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194429931359530Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)181194429941122201Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194429952293055Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181194429959330563Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194454459796478Rat

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


Reference Sequences
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
  ENSRNOP00000042594.6
Reference Protein Sequences
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, ENTREZGENE, 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