Ccdc74a (coiled-coil domain containing 74A) - 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: Ccdc74a (coiled-coil domain containing 74A) Rattus norvegicus
Analyze
Symbol: Ccdc74a
Name: coiled-coil domain containing 74A
RGD ID: 1588214
Description: Orthologous to several human genes including CCDC74A (coiled-coil domain containing 74A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; gentamycin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: coiled-coil domain-containing protein 74A; coiled-coil domain-containing protein 74B; hypothetical protein LOC680752; LOC680752
RGD Orthologs
Human
Mouse
Bonobo
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81196,860,161 - 96,864,540 (-)NCBIGRCr8
mRatBN7.21183,355,888 - 83,360,269 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1183,355,874 - 83,360,378 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01187,547,026 - 87,554,513 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1187,549,059 - 87,553,336 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01190,601,571 - 90,607,354 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,345,536 - 85,349,923 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1182,126,366 - 82,133,840 (-)NCBICelera
Cytogenetic Map11q23NCBI
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

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
Ccdc74a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81196,860,161 - 96,864,540 (-)NCBIGRCr8
mRatBN7.21183,355,888 - 83,360,269 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1183,355,874 - 83,360,378 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01187,547,026 - 87,554,513 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1187,549,059 - 87,553,336 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01190,601,571 - 90,607,354 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,345,536 - 85,349,923 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1182,126,366 - 82,133,840 (-)NCBICelera
Cytogenetic Map11q23NCBI
CCDC74A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382131,522,592 - 131,533,666 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2131,527,675 - 131,533,666 (+)EnsemblGRCh38hg38GRCh38
GRCh372132,285,461 - 132,291,239 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362132,001,962 - 132,007,709 (+)NCBINCBI36Build 36hg18NCBI36
Celera2126,010,320 - 126,016,067 (+)NCBICelera
Cytogenetic Map2q21.1NCBI
HuRef2124,278,895 - 124,284,529 (+)NCBIHuRef
CHM1_12132,289,029 - 132,294,861 (+)NCBICHM1_1
T2T-CHM13v2.02131,957,366 - 131,968,441 (+)NCBIT2T-CHM13v2.0
Ccdc74a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391617,464,340 - 17,468,602 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1617,464,334 - 17,468,602 (+)EnsemblGRCm39 Ensembl
GRCm381617,646,454 - 17,650,738 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,646,470 - 17,650,738 (+)EnsemblGRCm38mm10GRCm38
MGSCv371617,646,563 - 17,650,831 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361617,559,863 - 17,564,301 (+)NCBIMGSCv36mm8
Celera1618,219,708 - 18,223,976 (+)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1610.94NCBI
LOC100977660
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21345,462,456 - 45,469,488 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B45,477,430 - 45,484,464 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B28,840,187 - 28,846,161 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B132,322,254 - 132,325,827 (+)NCBIpanpan1.1PanPan1.1panPan2
LOC608483
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12630,369,183 - 30,374,726 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2630,327,879 - 30,333,361 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02631,777,576 - 31,783,060 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12629,823,463 - 29,828,945 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02629,447,658 - 29,453,140 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02630,537,244 - 30,542,726 (-)NCBIUU_Cfam_GSD_1.0

Variants

.
Variants in Ccdc74a
16 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:21
Interacting mature miRNAs:25
Transcripts:ENSRNOT00000002567
Prediction methods: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
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
2302043Pia27Pristane induced arthritis QTL 2718.60.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)118256654583440803Rat

Markers in Region
BE097295  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,355,908 - 83,356,091 (-)MAPPERmRatBN7.2
Rnor_6.01187,553,130 - 87,553,312NCBIRnor6.0
Rnor_5.01190,605,752 - 90,605,934UniSTSRnor5.0
RGSC_v3.41185,345,555 - 85,345,737UniSTSRGSC3.4
Celera1182,127,567 - 82,127,749UniSTS
RH 3.4 Map11699.9UniSTS
Cytogenetic Map11q23UniSTS
RH134498  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,362,751 - 83,362,964 (-)MAPPERmRatBN7.2
Rnor_6.01187,546,257 - 87,546,469NCBIRnor6.0
Rnor_5.01190,598,879 - 90,599,091UniSTSRnor5.0
RGSC_v3.41185,352,398 - 85,352,610UniSTSRGSC3.4
Celera1182,134,410 - 82,134,622UniSTS
RH 3.4 Map11707.7UniSTS
Cytogenetic Map11q23UniSTS
RH134757  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,361,246 - 83,361,445 (-)MAPPERmRatBN7.2
Rnor_6.01187,547,776 - 87,547,974NCBIRnor6.0
Rnor_5.01190,600,398 - 90,600,596UniSTSRnor5.0
RGSC_v3.41185,350,893 - 85,351,091UniSTSRGSC3.4
Celera1182,132,905 - 82,133,103UniSTS
RH 3.4 Map11700.2UniSTS
Cytogenetic Map11q23UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 5 5 7
Low 3 27 33 22 14 22 7 7 74 35 34 11 7
Below cutoff 16 14 14 14 1 3 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002567   ⟹   ENSRNOP00000002567
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1183,355,874 - 83,360,378 (-)Ensembl
Rnor_6.0 Ensembl1187,549,059 - 87,553,336 (+)Ensembl
RefSeq Acc Id: NM_001419901   ⟹   NP_001406830
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,860,161 - 96,864,540 (-)NCBI
mRatBN7.21183,355,890 - 83,360,269 (-)NCBI
RefSeq Acc Id: NM_001419902   ⟹   NP_001406831
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,860,161 - 96,864,540 (-)NCBI
mRatBN7.21183,355,890 - 83,360,269 (-)NCBI
RefSeq Acc Id: XM_039088985   ⟹   XP_038944913
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,860,161 - 96,863,626 (-)NCBI
mRatBN7.21183,355,888 - 83,360,102 (-)NCBI
RefSeq Acc Id: XM_039088987   ⟹   XP_038944915
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,860,161 - 96,864,336 (-)NCBI
mRatBN7.21183,355,888 - 83,360,069 (-)NCBI
RefSeq Acc Id: XM_063270763   ⟹   XP_063126833
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,860,161 - 96,863,581 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000002567   ⟸   ENSRNOT00000002567
RefSeq Acc Id: XP_038944913   ⟸   XM_039088985
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038944915   ⟸   XM_039088987
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001406831   ⟸   NM_001419902
- Peptide Label: isoform 2
RefSeq Acc Id: NP_001406830   ⟸   NM_001419901
- Peptide Label: isoform 1
- UniProtKB: F1M8E1 (UniProtKB/TrEMBL),   A6JSK6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126833   ⟸   XM_063270763
- Peptide Label: isoform X2
Protein Domains
CCDC92/74 N-terminal   Coiled coil protein 74 C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M8E1-F1-model_v2 AlphaFold F1M8E1 1-271 view protein structure

Transcriptome

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

Promoters
RGD ID:13698327
Promoter ID:EPDNEW_R8847
Type:initiation region
Name:Ccdc74a_1
Description:coiled-coil domain containing 74A
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_6.01187,548,987 - 87,549,047EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588214 AgrOrtholog
BioCyc Gene G2FUF-20605 BioCyc
Ensembl Genes ENSRNOG00000001876 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002567 ENTREZGENE
  ENSRNOT00000002567.7 UniProtKB/TrEMBL
InterPro CCDC74_C UniProtKB/TrEMBL
  CCDC74A/CCDC74B/CCDC92 UniProtKB/TrEMBL
  CCDC92/74_CC_dom UniProtKB/TrEMBL
KEGG Report rno:680752 UniProtKB/TrEMBL
NCBI Gene 680752 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING 74A UniProtKB/TrEMBL
  PTHR14882 UniProtKB/TrEMBL
Pfam CCDC74_C UniProtKB/TrEMBL
  CCDC92 UniProtKB/TrEMBL
PhenoGen Ccdc74a PhenoGen
RatGTEx ENSRNOG00000001876 RatGTEx
UniProt A6JSK6 ENTREZGENE, UniProtKB/TrEMBL
  F1M8E1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Ccdc74a  coiled-coil domain containing 74A  LOC682874  hypothetical protein LOC682874  Data merged from RGD:1593975 1643240 APPROVED
2008-10-30 Ccdc74a  coiled-coil domain containing 74A  LOC680752  hypothetical protein LOC680752  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC682874  hypothetical protein LOC682874      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC680752  hypothetical protein LOC680752      Symbol and Name status set to provisional 70820 PROVISIONAL