Ccdc82 (coiled-coil domain containing 82) - Rat Genome Database

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Gene: Ccdc82 (coiled-coil domain containing 82) Rattus norvegicus
Analyze
Symbol: Ccdc82
Name: coiled-coil domain containing 82
RGD ID: 1359666
Description: Predicted to be active in nucleus. Orthologous to human CCDC82 (coiled-coil domain containing 82); INTERACTS WITH 1,2-dimethylhydrazine; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: coiled-coil domain-containing protein 82; MGC94183; similar to hypothetical protein FLJ23518
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
mRatBN7.2810,227,727 - 10,265,963 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx814,212,789 - 14,251,003 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0812,510,498 - 12,548,712 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0810,488,629 - 10,526,686 (+)NCBIRnor_WKY
Rnor_6.0811,888,460 - 11,927,920 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl811,888,591 - 11,927,919 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0811,845,974 - 11,885,451 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4810,118,375 - 10,157,451 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1810,118,374 - 10,157,449 (+)NCBI
Celera811,726,946 - 11,764,927 (+)NCBICelera
Cytogenetic Map8q11NCBI
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

Cellular Component
nucleus  (IBA)

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. 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:22871113  


Genomics

Comparative Map Data
Ccdc82
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2810,227,727 - 10,265,963 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx814,212,789 - 14,251,003 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0812,510,498 - 12,548,712 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0810,488,629 - 10,526,686 (+)NCBIRnor_WKY
Rnor_6.0811,888,460 - 11,927,920 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl811,888,591 - 11,927,919 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0811,845,974 - 11,885,451 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4810,118,375 - 10,157,451 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1810,118,374 - 10,157,449 (+)NCBI
Celera811,726,946 - 11,764,927 (+)NCBICelera
Cytogenetic Map8q11NCBI
CCDC82
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381196,352,773 - 96,389,912 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1196,349,241 - 96,389,956 (-)EnsemblGRCh38hg38GRCh38
GRCh371196,085,937 - 96,123,076 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361195,725,590 - 95,762,709 (-)NCBINCBI36Build 36hg18NCBI36
Celera1193,386,131 - 93,423,283 (-)NCBICelera
Cytogenetic Map11q21NCBI
HuRef1192,152,648 - 92,189,803 (-)NCBIHuRef
CHM1_11195,969,288 - 96,006,437 (-)NCBICHM1_1
T2T-CHM13v2.01196,358,776 - 96,395,916 (-)NCBIT2T-CHM13v2.0
Ccdc82
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39913,246,573 - 13,292,867 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl913,246,536 - 13,292,867 (+)EnsemblGRCm39 Ensembl
GRCm38913,246,917 - 13,292,517 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl913,246,955 - 13,292,520 (+)EnsemblGRCm38mm10GRCm38
Celera910,604,678 - 10,650,978 (+)NCBICelera
Cytogenetic Map9A1NCBI
Ccdc82
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554121,174,945 - 1,205,326 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554121,178,695 - 1,208,883 (-)NCBIChiLan1.0ChiLan1.0
CCDC82
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11194,884,846 - 94,921,488 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1194,884,856 - 94,921,339 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01191,359,827 - 91,397,027 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CCDC82
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1214,785,169 - 4,818,832 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl214,782,389 - 4,817,988 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha214,796,008 - 4,830,180 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0214,955,528 - 4,989,731 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl214,955,560 - 4,989,716 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1214,745,691 - 4,779,936 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0214,816,051 - 4,850,234 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0214,863,849 - 4,898,032 (+)NCBIUU_Cfam_GSD_1.0
Ccdc82
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494781,130,429 - 81,163,448 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367001,387,332 - 1,415,494 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049367001,382,272 - 1,415,113 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC82
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl928,376,732 - 28,407,348 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1928,376,716 - 28,407,350 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2932,410,759 - 32,436,851 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC82
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1187,622,501 - 87,654,789 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl187,622,189 - 87,653,838 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604338,151,875 - 38,184,230 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc82
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473541,186,413 - 41,216,074 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473541,186,413 - 41,217,693 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccdc82
97 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:655
Count of miRNA genes:272
Interacting mature miRNAs:327
Transcripts:ENSRNOT00000037457
Prediction methods:Microtar, Miranda
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
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat

Markers in Region
RH143413  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2810,265,392 - 10,265,580 (+)MAPPERmRatBN7.2
Rnor_6.0811,927,350 - 11,927,537NCBIRnor6.0
Rnor_5.0811,884,881 - 11,885,068UniSTSRnor5.0
RGSC_v3.4810,156,881 - 10,157,068UniSTSRGSC3.4
Celera811,764,357 - 11,764,544UniSTS
RH 3.4 Map845.3UniSTS
Cytogenetic Map8q11UniSTS
RH139675  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2810,265,667 - 10,265,869 (+)MAPPERmRatBN7.2
Rnor_6.0811,927,625 - 11,927,826NCBIRnor6.0
Rnor_5.0811,885,156 - 11,885,357UniSTSRnor5.0
RGSC_v3.4810,157,156 - 10,157,357UniSTSRGSC3.4
Celera811,764,632 - 11,764,833UniSTS
RH 3.4 Map854.0UniSTS
Cytogenetic Map8q11UniSTS


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 2 18 10 19 10 52 9 21 10
Low 1 43 39 31 31 8 10 22 26 20 1 8
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000037457   ⟹   ENSRNOP00000037632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)Ensembl
Rnor_6.0 Ensembl811,889,154 - 11,927,918 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083967   ⟹   ENSRNOP00000074185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)Ensembl
Rnor_6.0 Ensembl811,888,591 - 11,927,919 (+)Ensembl
RefSeq Acc Id: NM_001007660   ⟹   NP_001007661
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2810,227,789 - 10,265,963 (+)NCBI
Rnor_6.0811,888,520 - 11,927,920 (+)NCBI
Rnor_5.0811,845,974 - 11,885,451 (+)NCBI
RGSC_v3.4810,118,375 - 10,157,451 (+)RGD
Celera811,726,946 - 11,764,927 (+)RGD
Sequence:
RefSeq Acc Id: XM_006242519   ⟹   XP_006242581
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2810,227,727 - 10,265,963 (+)NCBI
Rnor_6.0811,888,460 - 11,927,920 (+)NCBI
Rnor_5.0811,845,974 - 11,885,451 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039080984   ⟹   XP_038936912
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2810,227,727 - 10,255,989 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001007661   ⟸   NM_001007660
- UniProtKB: Q66H73 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242581   ⟸   XM_006242519
- Peptide Label: isoform X1
- UniProtKB: Q66H73 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074185   ⟸   ENSRNOT00000083967
RefSeq Acc Id: ENSRNOP00000037632   ⟸   ENSRNOT00000037457
RefSeq Acc Id: XP_038936912   ⟸   XM_039080984
- Peptide Label: isoform X2
Protein Domains
DUF4196   DUF4211

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q66H73-F1-model_v2 AlphaFold Q66H73 1-516 view protein structure

Transcriptome

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

Promoters
RGD ID:13695741
Promoter ID:EPDNEW_R6264
Type:single initiation site
Name:Ccdc82_1
Description:coiled-coil domain containing 82
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_6.0811,888,509 - 11,888,569EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359666 AgrOrtholog
BioCyc Gene G2FUF-31716 BioCyc
Ensembl Genes ENSRNOG00000005713 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000037632 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074185.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000037457 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000083967.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7129126 IMAGE-MGC_LOAD
InterPro CCDC82 UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  DUF4211 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:300359 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94183 IMAGE-MGC_LOAD
NCBI Gene 300359 ENTREZGENE
Pfam DUF4196 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DUF4211 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ccdc82 PhenoGen
UniProt A0A8L2R8F3_RAT UniProtKB/TrEMBL
  CCD82_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Ccdc82  coiled-coil domain containing 82  MGC94183  similar to hypothetical protein FLJ23518  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 MGC94183  similar to hypothetical protein FLJ23518      Symbol and Name status set to provisional 70820 PROVISIONAL