Ccdc85a (coiled-coil domain containing 85A) - Rat Genome Database

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Gene: Ccdc85a (coiled-coil domain containing 85A) Rattus norvegicus
Analyze
Symbol: Ccdc85a
Name: coiled-coil domain containing 85A
RGD ID: 1311700
Description: Predicted to be located in adherens junction. Orthologous to human CCDC85A (coiled-coil domain containing 85A); INTERACTS WITH bisphenol A; copper atom; copper(0).
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: coiled-coil domain-containing protein 85A; coiled-coil domain-containing protein 85A-like; LOC100911414; LOC103690141; LOC289855; RGD1311700; similar to KIAA1912 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Ccdc85aTn(sb-T2/Bart3)2.248Mcwi  
Genetic Models: F344-Ccdc85aTn(sb-T2/Bart3)2.248Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.214102,126,574 - 102,359,207 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl14102,129,029 - 102,359,058 (-)Ensembl
Rnor_6.014112,719,482 - 112,900,724 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14112,719,482 - 112,946,875 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014112,609,601 - 112,636,341 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414109,197,317 - 109,434,306 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.114109,223,697 - 109,460,940 (-)NCBI
Celera14101,030,718 - 101,258,749 (-)NCBICelera
Cytogenetic Map14q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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
3. Comprehensive gene review and curation RGD comprehensive gene curation

Genomics

Comparative Map Data
Ccdc85a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.214102,126,574 - 102,359,207 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl14102,129,029 - 102,359,058 (-)Ensembl
Rnor_6.014112,719,482 - 112,900,724 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14112,719,482 - 112,946,875 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014112,609,601 - 112,636,341 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414109,197,317 - 109,434,306 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.114109,223,697 - 109,460,940 (-)NCBI
Celera14101,030,718 - 101,258,749 (-)NCBICelera
Cytogenetic Map14q22NCBI
CCDC85A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38256,183,852 - 56,386,174 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl256,183,990 - 56,386,172 (+)EnsemblGRCh38hg38GRCh38
GRCh37256,411,125 - 56,613,309 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36256,264,762 - 56,466,813 (+)NCBINCBI36hg18NCBI36
Celera256,251,690 - 56,453,674 (+)NCBI
Cytogenetic Map2p16.1NCBI
HuRef256,146,293 - 56,348,445 (+)NCBIHuRef
CHM1_1256,341,175 - 56,543,205 (+)NCBICHM1_1
T2T-CHM13v2.0256,180,958 - 56,383,162 (+)NCBI
Ccdc85a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391128,335,684 - 28,537,234 (-)NCBIGRCm39mm39
GRCm39 Ensembl1128,335,685 - 28,534,324 (-)Ensembl
GRCm381128,385,684 - 28,587,234 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1128,385,685 - 28,584,324 (-)EnsemblGRCm38mm10GRCm38
MGSCv371128,285,692 - 28,484,296 (-)NCBIGRCm37mm9NCBIm37
MGSCv361128,288,815 - 28,484,296 (-)NCBImm8
Celera1130,750,112 - 30,960,264 (-)NCBICelera
Cytogenetic Map11A3.3NCBI
Ccdc85a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542426,756,785 - 26,934,525 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542426,756,844 - 26,934,525 (-)NCBIChiLan1.0ChiLan1.0
CCDC85A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A57,470,673 - 57,675,447 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A57,472,615 - 57,673,628 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A56,334,388 - 56,537,647 (+)NCBIMhudiblu_PPA_v0panPan3
CCDC85A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11056,936,486 - 57,122,392 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1056,936,376 - 57,120,665 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1056,885,406 - 57,078,992 (+)NCBI
ROS_Cfam_1.01057,933,988 - 58,127,612 (+)NCBI
ROS_Cfam_1.0 Ensembl1057,934,025 - 58,127,526 (+)Ensembl
UMICH_Zoey_3.11057,636,031 - 57,826,015 (+)NCBI
UNSW_CanFamBas_1.01057,915,711 - 58,109,089 (+)NCBI
UU_Cfam_GSD_1.01058,207,432 - 58,401,191 (+)NCBI
Ccdc85a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629225,966,387 - 26,145,213 (-)NCBI
SpeTri2.0NW_0049364912,426,566 - 2,604,905 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC85A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl384,958,384 - 85,165,656 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1384,958,384 - 85,649,854 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2389,688,466 - 89,884,239 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC85A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11450,529,697 - 50,731,723 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1450,529,728 - 50,731,099 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604560,986,809 - 61,186,469 (+)NCBIVero_WHO_p1.0
Ccdc85a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248335,229,208 - 5,407,417 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248335,229,333 - 5,407,443 (-)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat


Genetic Models
This gene Ccdc85a is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:34
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000056813
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 6 42 9
Low 37 28 12 17 12 8 10 26 23 30 2 8
Below cutoff 2 25 25 2 25 1 6 12 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000056813   ⟹   ENSRNOP00000053657
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl14102,129,680 - 102,359,058 (-)Ensembl
Rnor_6.0 Ensembl14112,719,482 - 112,946,204 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081981   ⟹   ENSRNOP00000075420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl14102,129,680 - 102,359,058 (-)Ensembl
Rnor_6.0 Ensembl14112,938,928 - 112,946,875 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103938   ⟹   ENSRNOP00000091651
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl14102,129,304 - 102,359,058 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113987   ⟹   ENSRNOP00000086775
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl14102,129,029 - 102,359,058 (-)Ensembl
RefSeq Acc Id: NM_001191553   ⟹   NP_001178482
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214102,129,680 - 102,358,443 (-)NCBI
Rnor_6.014112,719,482 - 112,900,724 (-)NCBI
Rnor_5.014112,609,601 - 112,636,341 (-)NCBI
Celera14101,030,718 - 101,258,749 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039091769   ⟹   XP_038947697
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214102,126,574 - 102,359,207 (-)NCBI
RefSeq Acc Id: XM_039091770   ⟹   XP_038947698
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214102,126,574 - 102,359,207 (-)NCBI
RefSeq Acc Id: XM_039091772   ⟹   XP_038947700
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214102,126,574 - 102,359,206 (-)NCBI
RefSeq Acc Id: XM_039091773   ⟹   XP_038947701
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214102,126,574 - 102,359,205 (-)NCBI
RefSeq Acc Id: XM_039091774   ⟹   XP_038947702
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214102,126,574 - 102,358,072 (-)NCBI
RefSeq Acc Id: XM_039091775   ⟹   XP_038947703
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.214102,328,378 - 102,359,206 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001178482   ⟸   NM_001191553
- UniProtKB: D3ZMD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000053657   ⟸   ENSRNOT00000056813
RefSeq Acc Id: ENSRNOP00000075420   ⟸   ENSRNOT00000081981
RefSeq Acc Id: XP_038947698   ⟸   XM_039091770
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038947697   ⟸   XM_039091769
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947700   ⟸   XM_039091772
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947701   ⟸   XM_039091773
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038947702   ⟸   XM_039091774
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038947703   ⟸   XM_039091775
- Peptide Label: isoform X6
RefSeq Acc Id: ENSRNOP00000091651   ⟸   ENSRNOT00000103938
RefSeq Acc Id: ENSRNOP00000086775   ⟸   ENSRNOT00000113987

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZMD4-F1-model_v2 AlphaFold D3ZMD4 1-545 view protein structure

Transcriptome

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


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)
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
LEXF1A/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
LEXF1C/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
LEXF2B/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
LEXF3/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
LEXF4/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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
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: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 102136812 102136813 G A snv BUF/N (2020)
14 102351502 102351503 C T snv ACI/N (2020), DA/OlaHsd (2019), SS/JrHsdMcwi (2019), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), MR/N (2020), ACI/EurMcwi (2019), LEW/Crl (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311700 AgrOrtholog
BioCyc Gene G2FUF-14706 BioCyc
Ensembl Genes ENSRNOG00000003374 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000053657 ENTREZGENE
  ENSRNOP00000053657.2 UniProtKB/TrEMBL
  ENSRNOP00000075420 ENTREZGENE
  ENSRNOP00000075420.2 UniProtKB/TrEMBL
  ENSRNOP00000086775 ENTREZGENE
  ENSRNOP00000086775.1 UniProtKB/TrEMBL
  ENSRNOP00000091651 ENTREZGENE
  ENSRNOP00000091651.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000056813 ENTREZGENE
  ENSRNOT00000056813.3 UniProtKB/TrEMBL
  ENSRNOT00000081981 ENTREZGENE
  ENSRNOT00000081981.2 UniProtKB/TrEMBL
  ENSRNOT00000103938 ENTREZGENE
  ENSRNOT00000103938.1 UniProtKB/TrEMBL
  ENSRNOT00000113987 ENTREZGENE
  ENSRNOT00000113987.1 UniProtKB/TrEMBL
InterPro DUF2216 UniProtKB/TrEMBL
KEGG Report rno:289855 UniProtKB/TrEMBL
NCBI Gene 289855 ENTREZGENE
PANTHER PTHR13546 UniProtKB/TrEMBL
Pfam DUF2216 UniProtKB/TrEMBL
PhenoGen Ccdc85a PhenoGen
UniProt A0A0G2KAJ5_RAT UniProtKB/TrEMBL
  A0A8I6A4G3_RAT UniProtKB/TrEMBL
  A0A8I6GJ51_RAT UniProtKB/TrEMBL
  D3ZMD4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Ccdc85a  coiled-coil domain containing 85A  LOC103690141  coiled-coil domain-containing protein 85A-like  Data Merged 737654 PROVISIONAL
2015-07-29 Ccdc85a  coiled-coil domain containing 85A  LOC100911414  coiled-coil domain-containing protein 85A-like  Data Merged 737654 PROVISIONAL
2014-08-25 LOC103690141  coiled-coil domain-containing protein 85A-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-07-05 LOC100911414  coiled-coil domain-containing protein 85A-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-02-27 Ccdc85a  coiled-coil domain containing 85A  RGD1311700_predicted  similar to KIAA1912 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1311700_predicted  similar to KIAA1912 protein (predicted)  LOC289855_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC289855_predicted  similar to KIAA1912 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL