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

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Pathways
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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8818,509,293 - 18,665,008 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl818,509,382 - 18,550,529 (+)EnsemblGRCr8
mRatBN7.2810,227,727 - 10,265,963 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx814,212,789 - 14,251,003 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0812,510,498 - 12,548,712 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0810,488,629 - 10,526,686 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0811,888,460 - 11,927,920 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl811,888,591 - 11,927,919 (+)Ensemblrn6Rnor6.0
Rnor_5.0811,845,974 - 11,885,451 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4810,118,375 - 10,157,451 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera811,726,946 - 11,764,927 (+)NCBICelera
RGSC_v3.1810,118,374 - 10,157,449 (+)NCBI
Cytogenetic Map8q11NCBI
JBrowse:




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
GRCr8818,509,293 - 18,665,008 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl818,509,382 - 18,550,529 (+)EnsemblGRCr8
mRatBN7.2810,227,727 - 10,265,963 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx814,212,789 - 14,251,003 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0812,510,498 - 12,548,712 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0810,488,629 - 10,526,686 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0811,888,460 - 11,927,920 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl811,888,591 - 11,927,919 (+)Ensemblrn6Rnor6.0
Rnor_5.0811,845,974 - 11,885,451 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4810,118,375 - 10,157,451 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera811,726,946 - 11,764,927 (+)NCBICelera
RGSC_v3.1810,118,374 - 10,157,449 (+)NCBI
Cytogenetic Map8q11NCBI
CCDC82
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381196,352,773 - 96,389,912 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1196,349,241 - 96,389,956 (-)Ensemblhg38GRCh38
GRCh371196,085,937 - 96,123,076 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361195,725,590 - 95,762,709 (-)NCBIBuild 36Build 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-CHM13v2.01196,358,768 - 96,395,934 (-)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 EnsemblGRCm39
GRCm38913,246,917 - 13,292,517 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl913,246,955 - 13,292,520 (+)Ensemblmm10GRCm38
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 (-)Ensembl
ChiLan1.0NW_0049554121,178,695 - 1,208,883 (-)NCBIChiLan1.0ChiLan1.0
CCDC82
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2997,200,333 - 97,237,641 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11198,292,237 - 98,329,090 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01191,359,827 - 91,397,027 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11194,884,846 - 94,921,488 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1194,884,856 - 94,921,339 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha214,796,008 - 4,830,180 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0214,955,528 - 4,989,731 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 Ensembl
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 (-)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473541,186,413 - 41,217,693 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Ccdc82
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v189,219,367 - 9,256,847 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ccdc82
2261 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)81296416557964165Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)81296416557964165Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8132882639Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)81296416557964165Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat

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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000037457   ⟹   ENSRNOP00000037632
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl818,509,382 - 18,547,772 (+)Ensembl
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)Ensembl
Rnor_6.0 Ensembl811,889,154 - 11,927,918 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000083967   ⟹   ENSRNOP00000074185
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl818,509,382 - 18,547,772 (+)Ensembl
mRatBN7.2 Ensembl810,228,430 - 10,265,963 (+)Ensembl
Rnor_6.0 Ensembl811,888,591 - 11,927,919 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000147330   ⟹   ENSRNOP00000110175
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl818,509,382 - 18,550,529 (+)Ensembl
RefSeq Acc Id: NM_001007660   ⟹   NP_001007661
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8818,509,425 - 18,547,597 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8818,509,293 - 18,547,597 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8818,509,340 - 18,537,634 (+)NCBI
mRatBN7.2810,227,727 - 10,255,989 (+)NCBI
RefSeq Acc Id: XM_063265043   ⟹   XP_063121113
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8818,509,340 - 18,665,008 (+)NCBI
RefSeq Acc Id: XR_010053938
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8818,509,340 - 18,551,681 (+)NCBI
RefSeq Acc Id: NP_001007661   ⟸   NM_001007660
- UniProtKB: Q66H73 (UniProtKB/Swiss-Prot),   A6JN69 (UniProtKB/TrEMBL),   A0A8L2R8F3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242581   ⟸   XM_006242519
- Peptide Label: isoform X1
- UniProtKB: Q66H73 (UniProtKB/Swiss-Prot),   A6JN69 (UniProtKB/TrEMBL),   A0A8L2R8F3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000074185   ⟸   ENSRNOT00000083967
Ensembl Acc Id: ENSRNOP00000037632   ⟸   ENSRNOT00000037457
RefSeq Acc Id: XP_038936912   ⟸   XM_039080984
- Peptide Label: isoform X3
- UniProtKB: A0A8L2R8F3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063121113   ⟸   XM_063265043
- Peptide Label: isoform X2
- UniProtKB: A0A8L2R8F3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000110175   ⟸   ENSRNOT00000147330
Protein Domains
Coiled-coil   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
Ensembl Transcript ENSRNOT00000037457 ENTREZGENE
  ENSRNOT00000037457.5 UniProtKB/Swiss-Prot
  ENSRNOT00000147330 ENTREZGENE
IMAGE_CLONE IMAGE:7129126 IMAGE-MGC_LOAD
InterPro DUF4196 UniProtKB/Swiss-Prot
  DUF4211 UniProtKB/Swiss-Prot
KEGG Report rno:300359 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94183 IMAGE-MGC_LOAD
NCBI Gene 300359 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 82 UniProtKB/Swiss-Prot
  UNCHARACTERIZED UniProtKB/Swiss-Prot
Pfam DUF4196 UniProtKB/Swiss-Prot
  DUF4211 UniProtKB/Swiss-Prot
PhenoGen Ccdc82 PhenoGen
RatGTEx ENSRNOG00000005713 RatGTEx
UniProt A0A8L2R8F3 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LH62_RAT UniProtKB/TrEMBL
  A6JN69 ENTREZGENE, 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