Cops7b (COP9 signalosome subunit 7B) - Rat Genome Database

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Gene: Cops7b (COP9 signalosome subunit 7B) Rattus norvegicus
Analyze
Symbol: Cops7b
Name: COP9 signalosome subunit 7B
RGD ID: 1306918
Description: Predicted to be involved in protein deneddylation. Predicted to be located in nucleoplasm. Predicted to be part of COP9 signalosome. Orthologous to human COPS7B (COP9 signalosome subunit 7B); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: COP9 (constitutive photomorphogenic) homolog, subunit 7b; COP9 (constitutive photomorphogenic) homolog, subunit 7b (Arabidopsis thaliana) ; COP9 constitutive photomorphogenic homolog subunit 7B; COP9 constitutive photomorphogenic homolog subunit 7B (Arabidopsis); COP9 signalosome complex subunit 7b; LOC363273
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
mRatBN7.2987,238,132 - 87,263,967 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl987,238,375 - 87,263,967 (+)Ensembl
Rnor_6.0993,607,199 - 93,633,064 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,607,477 - 93,633,064 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,335,116 - 93,361,000 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,353,285 - 85,378,872 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1985,541,787 - 85,560,985 (+)NCBI
Celera984,653,671 - 84,679,234 (+)NCBICelera
Cytogenetic Map9q35NCBI
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

Biological Process

Cellular Component
COP9 signalosome  (IBA,ISO)
cytoplasm  (IEA)
nucleoplasm  (ISO)

Molecular Function

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18850735   PMID:19141280  


Genomics

Comparative Map Data
Cops7b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2987,238,132 - 87,263,967 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl987,238,375 - 87,263,967 (+)Ensembl
Rnor_6.0993,607,199 - 93,633,064 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,607,477 - 93,633,064 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,335,116 - 93,361,000 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,353,285 - 85,378,872 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1985,541,787 - 85,560,985 (+)NCBI
Celera984,653,671 - 84,679,234 (+)NCBICelera
Cytogenetic Map9q35NCBI
COPS7B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382231,781,671 - 231,809,253 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2231,781,671 - 231,809,254 (+)EnsemblGRCh38hg38GRCh38
GRCh372232,646,381 - 232,673,963 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362232,359,406 - 232,381,678 (+)NCBINCBI36hg18NCBI36
Build 342232,476,666 - 232,498,939NCBI
Celera2226,427,678 - 226,449,946 (+)NCBI
Cytogenetic Map2q37.1NCBI
HuRef2224,495,756 - 224,515,928 (+)NCBIHuRef
CHM1_12232,656,979 - 232,679,248 (+)NCBICHM1_1
T2T-CHM13v2.02232,266,242 - 232,293,824 (+)NCBI
Cops7b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39186,510,363 - 86,534,550 (+)NCBIGRCm39mm39
GRCm39 Ensembl186,510,626 - 86,537,097 (+)Ensembl
GRCm38186,582,646 - 86,606,828 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl186,582,904 - 86,609,375 (+)EnsemblGRCm38mm10GRCm38
MGSCv37188,483,675 - 88,503,075 (+)NCBIGRCm37mm9NCBIm37
MGSCv36188,418,271 - 88,437,671 (+)NCBImm8
Celera189,556,717 - 89,576,116 (+)NCBICelera
Cytogenetic Map1C5NCBI
cM Map143.97NCBI
Cops7b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554533,967,241 - 3,986,314 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554533,967,241 - 3,991,802 (-)NCBIChiLan1.0ChiLan1.0
COPS7B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B237,821,398 - 237,849,340 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B237,821,398 - 237,849,340 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B119,033,879 - 119,061,293 (+)NCBIMhudiblu_PPA_v0panPan3
COPS7B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12543,637,170 - 43,663,218 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2543,637,335 - 43,661,654 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2544,130,643 - 44,156,556 (+)NCBI
ROS_Cfam_1.02543,893,737 - 43,919,891 (+)NCBI
ROS_Cfam_1.0 Ensembl2543,893,973 - 43,919,891 (+)Ensembl
UMICH_Zoey_3.12543,821,166 - 43,847,074 (+)NCBI
UNSW_CanFamBas_1.02543,664,546 - 43,690,798 (+)NCBI
UU_Cfam_GSD_1.02543,819,902 - 43,845,831 (+)NCBI
Cops7b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303185,753,572 - 185,780,853 (+)NCBI
SpeTri2.0NW_0049365255,159,157 - 5,186,142 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COPS7B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15132,427,041 - 132,450,690 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115132,427,023 - 132,451,199 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215146,193,566 - 146,201,261 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COPS7B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110117,809,981 - 117,837,768 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl10117,817,405 - 117,836,665 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604081,601,415 - 81,629,109 (-)NCBIVero_WHO_p1.0
Cops7b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248434,780,374 - 4,801,692 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248434,776,689 - 4,801,692 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH140092  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2987,236,414 - 87,236,601 (+)MAPPERmRatBN7.2
Rnor_6.0993,605,517 - 93,605,703NCBIRnor6.0
Rnor_5.0993,333,453 - 93,333,639UniSTSRnor5.0
RGSC_v3.4985,351,325 - 85,351,511UniSTSRGSC3.4
Celera984,651,711 - 84,651,897UniSTS
Cytogenetic Map9q35UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
12879506Pur33Proteinuria QTL 33total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97927151191616855Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)98636963192058970Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:187
Count of miRNA genes:131
Interacting mature miRNAs:140
Transcripts:ENSRNOT00000025411
Prediction methods:Miranda, Rnahybrid
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.


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 3 26 26 18 16 18 69 20 40 10
Low 17 31 23 3 23 8 11 5 15 1 1 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000025411   ⟹   ENSRNOP00000025411
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl987,238,375 - 87,263,967 (+)Ensembl
Rnor_6.0 Ensembl993,607,477 - 93,633,064 (+)Ensembl
RefSeq Acc Id: NM_001108807   ⟹   NP_001102277
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2987,238,375 - 87,263,967 (+)NCBI
Rnor_6.0993,607,477 - 93,633,064 (+)NCBI
Rnor_5.0993,335,116 - 93,361,000 (+)NCBI
RGSC_v3.4985,353,285 - 85,378,872 (+)RGD
Celera984,653,671 - 84,679,234 (+)RGD
Sequence:
RefSeq Acc Id: XM_006245414   ⟹   XP_006245476
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2987,242,830 - 87,263,721 (+)NCBI
Rnor_6.0993,611,894 - 93,632,818 (+)NCBI
Rnor_5.0993,335,116 - 93,361,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006245415   ⟹   XP_006245477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2987,238,132 - 87,263,721 (+)NCBI
Rnor_6.0993,607,199 - 93,632,818 (+)NCBI
Rnor_5.0993,335,116 - 93,361,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039083916   ⟹   XP_038939844
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2987,240,819 - 87,263,721 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001102277   ⟸   NM_001108807
- UniProtKB: D3ZU52 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245477   ⟸   XM_006245415
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006245476   ⟸   XM_006245414
- Peptide Label: isoform X1
- UniProtKB: D3ZU52 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000025411   ⟸   ENSRNOT00000025411
RefSeq Acc Id: XP_038939844   ⟸   XM_039083916
- Peptide Label: isoform X2
Protein Domains
PCI

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZU52-F1-model_v2 AlphaFold D3ZU52 1-322 view protein structure

Transcriptome

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

Promoters
RGD ID:13696826
Promoter ID:EPDNEW_R7351
Type:initiation region
Name:Cops7b_1
Description:COP9 signalosome subunit 7B
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_6.0993,607,492 - 93,607,552EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 93614907 93614908 T C snv BN/SsN (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 85360715 85360716 T C snv FHL/EurMcwi (MCW), BN/SsN (KNAW), LE/Stm (KNAW)
9 85360770 85360771 A G snv SHRSP/Gcrc (MDC)
9 85360800 85360801 T C snv SS/JrHsdMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306918 AgrOrtholog
BioCyc Gene G2FUF-26862 BioCyc
Ensembl Genes ENSRNOG00000018723 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025411 ENTREZGENE
  ENSRNOP00000025411.4 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025411 ENTREZGENE
  ENSRNOT00000025411.7 UniProtKB/TrEMBL
InterPro COPS7/eIF3m UniProtKB/TrEMBL
  Csn7 UniProtKB/TrEMBL
  CSN7_helixI UniProtKB/TrEMBL
  PCI_dom UniProtKB/TrEMBL
KEGG Report rno:363273 UniProtKB/TrEMBL
NCBI Gene 363273 ENTREZGENE
PANTHER PTHR15350 UniProtKB/TrEMBL
  PTHR15350:SF8 UniProtKB/TrEMBL
Pfam CSN7a_helixI UniProtKB/TrEMBL
  PCI UniProtKB/TrEMBL
PhenoGen Cops7b PhenoGen
PROSITE PCI UniProtKB/TrEMBL
SMART PINT UniProtKB/TrEMBL
UniProt D3ZU52 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-20 Cops7b  COP9 signalosome subunit 7B  Cops7b  COP9 constitutive photomorphogenic homolog subunit 7B (Arabidopsis)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-23 Cops7b  COP9 constitutive photomorphogenic homolog subunit 7B (Arabidopsis)  Cops7b  COP9 (constitutive photomorphogenic) homolog, subunit 7b (Arabidopsis thaliana)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cops7b  COP9 (constitutive photomorphogenic) homolog, subunit 7b (Arabidopsis thaliana)   Cops7b_predicted  COP9 (constitutive photomorphogenic) homolog, subunit 7b (Arabidopsis thaliana) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cops7b_predicted  COP9 (constitutive photomorphogenic) homolog, subunit 7b (Arabidopsis thaliana) (predicted)      Symbol and Name status set to approved 70820 APPROVED