CCDC179 (coiled-coil domain containing 179) - 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: CCDC179 (coiled-coil domain containing 179) Canis lupus familiaris
Analyze
Symbol: CCDC179
Name: coiled-coil domain containing 179
RGD ID: 12292534
Description: ASSOCIATED WITH bladder exstrophy-epispadias-cloacal exstrophy complex (ortholog); genetic disease (ortholog); intellectual disability (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: coiled-coil domain-containing protein 179
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
NCBI Annotation Information: Note: On NCBI's Build 1.1, GeneID:476890 was annotated with two model RefSeqs. XM_860537.1 correctly represented this locus, but XM_534092.2 was a poorly supported read-through annotation extending into the next locus. To correct this error, GeneID:476890 was updated to represent only the upstream locus, and GeneID:100500800 was created to represent the downstream locus. [17 Jun 2014]
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12144,427,458 - 44,440,982 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2144,427,462 - 44,440,917 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2143,901,562 - 43,915,048 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02145,545,452 - 45,558,705 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2145,545,454 - 45,558,644 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12144,543,752 - 44,557,186 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02144,715,942 - 44,729,161 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02145,109,509 - 45,123,145 (-)NCBIUU_Cfam_GSD_1.0
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

Molecular Function

References

Genomics

Comparative Map Data
CCDC179
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12144,427,458 - 44,440,982 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2144,427,462 - 44,440,917 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2143,901,562 - 43,915,048 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02145,545,452 - 45,558,705 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2145,545,454 - 45,558,644 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12144,543,752 - 44,557,186 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02144,715,942 - 44,729,161 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02145,109,509 - 45,123,145 (-)NCBIUU_Cfam_GSD_1.0
CCDC179
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381122,846,922 - 22,860,474 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1122,846,922 - 22,860,474 (-)EnsemblGRCh38hg38GRCh38
GRCh371122,868,468 - 22,882,020 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map11p14.3NCBI
HuRef1122,551,862 - 22,565,385 (-)NCBIHuRef
CHM1_11122,867,742 - 22,881,222 (-)NCBICHM1_1
T2T-CHM13v2.01122,967,590 - 22,981,127 (-)NCBIT2T-CHM13v2.0
Ccdc179
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39751,661,428 - 51,665,464 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl751,661,431 - 51,665,476 (-)EnsemblGRCm39 Ensembl
GRCm38752,011,680 - 52,015,716 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl752,011,683 - 52,015,728 (-)EnsemblGRCm38mm10GRCm38
MGSCv37759,267,054 - 59,271,086 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36759,267,050 - 59,271,086 (-)NCBIMGSCv36mm8
Celera749,382,645 - 49,386,725 (-)NCBICelera
Cytogenetic Map7B4NCBI
cM Map732.92NCBI
Ccdc179
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81110,736,292 - 110,740,256 (-)NCBIGRCr8
mRatBN7.21101,600,369 - 101,604,288 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1101,600,369 - 101,604,269 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1107,009,138 - 107,013,058 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01115,481,028 - 115,484,948 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01108,784,462 - 108,788,378 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01107,381,355 - 107,385,257 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1107,381,357 - 107,385,257 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01108,423,074 - 108,426,974 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41101,818,827 - 101,822,712 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera195,767,008 - 95,770,908 (-)NCBICelera
Cytogenetic Map1q22NCBI
Ccdc179
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554763,244,108 - 3,250,221 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554763,243,974 - 3,250,305 (-)NCBIChiLan1.0ChiLan1.0
CCDC179
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2925,131,882 - 25,146,481 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11125,106,921 - 25,110,591 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01122,854,459 - 22,868,598 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11122,761,523 - 22,774,994 (-)NCBIpanpan1.1PanPan1.1panPan2
Ccdc179
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494740,445,537 - 40,463,188 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366543,478,268 - 3,480,947 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366543,478,268 - 3,480,947 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC179
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl236,687,928 - 36,699,462 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1236,681,293 - 36,698,794 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CCDC179
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1142,154,649 - 42,166,121 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl142,155,114 - 42,157,632 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038139,447,491 - 139,458,827 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc179
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476613,754,213 - 13,758,597 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CCDC179
317 total Variants

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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system adipose tissue
High 8
Medium 1
Low 1 1 1 1 1 1 1
Below cutoff 1 2 2 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001195607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022407430 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022407431 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022407432 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022407433 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022407434 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038429477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038429478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DN344122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DN344202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DN346263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000059 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000044009   ⟹   ENSCAFP00000037354
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2144,427,462 - 44,440,917 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845041338   ⟹   ENSCAFP00845032409
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2145,545,454 - 45,558,644 (-)Ensembl
RefSeq Acc Id: NM_001195607   ⟹   NP_001182536
RefSeq Status: VALIDATED
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12144,427,460 - 44,440,917 (-)NCBI
Dog10K_Boxer_Tasha2143,901,562 - 43,915,048 (-)NCBI
ROS_Cfam_1.02145,545,452 - 45,558,644 (-)NCBI
UMICH_Zoey_3.12144,543,752 - 44,557,186 (-)NCBI
UNSW_CanFamBas_1.02144,715,942 - 44,729,161 (-)NCBI
UU_Cfam_GSD_1.02145,109,509 - 45,123,145 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038429477   ⟹   XP_038285405
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02145,545,452 - 45,558,642 (-)NCBI
RefSeq Acc Id: XM_038429478   ⟹   XP_038285406
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02145,545,452 - 45,558,705 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001182536   ⟸   NM_001195607
- UniProtKB: A0A8C0PEJ9 (UniProtKB/TrEMBL),   A0A8I3PVN1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000037354   ⟸   ENSCAFT00000044009
RefSeq Acc Id: XP_038285406   ⟸   XM_038429478
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038285405   ⟸   XM_038429477
- Peptide Label: isoform X1
RefSeq Acc Id: ENSCAFP00845032409   ⟸   ENSCAFT00845041338

Promoters
RGD ID:13687276
Promoter ID:EPDNEW_C5345
Type:single initiation site
Name:CCDC179_1
Description:coiled-coil domain containing 179
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12144,440,906 - 44,440,966EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000032293 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030023613 UniProtKB/TrEMBL
  ENSCAFG00040004678 UniProtKB/TrEMBL
  ENSCAFG00845023419 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000044009.2 UniProtKB/TrEMBL
  ENSCAFT00030043409.1 UniProtKB/TrEMBL
  ENSCAFT00040008819.1 UniProtKB/TrEMBL
  ENSCAFT00845041338 ENTREZGENE
  ENSCAFT00845041338.1 UniProtKB/TrEMBL
KEGG Report cfa:476890 UniProtKB/TrEMBL
NCBI Gene CCDC179 ENTREZGENE
UniProt A0A8C0PEJ9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PVN1 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:52067 ENTREZGENE