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

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Gene: Ccdc85a (coiled-coil domain containing 85A) Rattus norvegicus
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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: PROVISIONAL
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 Orthologs
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
GRCr814106,327,580 - 106,560,205 (-)NCBIGRCr8
mRatBN7.214102,126,574 - 102,359,207 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl14102,129,029 - 102,359,058 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14106,450,426 - 106,686,568 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014107,688,267 - 107,923,335 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014104,160,670 - 104,395,753 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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-Chemical Interaction Annotations     Click to see Annotation Detail View
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
GRCr814106,327,580 - 106,560,205 (-)NCBIGRCr8
mRatBN7.214102,126,574 - 102,359,207 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl14102,129,029 - 102,359,058 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14106,450,426 - 106,686,568 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014107,688,267 - 107,923,335 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014104,160,670 - 104,395,753 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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.p14 Ensembl256,183,990 - 56,386,172 (+)EnsemblGRCh38hg38GRCh38
GRCh37256,411,125 - 56,613,309 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36256,264,762 - 56,466,813 (+)NCBINCBI36Build 36hg18NCBI36
Celera256,251,690 - 56,453,674 (+)NCBICelera
Cytogenetic Map2p16.1NCBI
HuRef256,146,293 - 56,348,445 (+)NCBIHuRef
CHM1_1256,341,175 - 56,543,205 (+)NCBICHM1_1
T2T-CHM13v2.0256,178,293 - 56,383,162 (+)NCBIT2T-CHM13v2.0
Ccdc85a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391128,335,688 - 28,537,234 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1128,335,685 - 28,534,324 (-)EnsemblGRCm39 Ensembl
GRCm381128,385,684 - 28,587,234 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1128,385,685 - 28,584,324 (-)EnsemblGRCm38mm10GRCm38
MGSCv371128,285,692 - 28,484,296 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361128,288,815 - 28,484,296 (-)NCBIMGSCv36mm8
Celera1130,750,112 - 30,960,264 (-)NCBICelera
Cytogenetic Map11A3.3NCBI
cM Map1116.22NCBI
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
NHGRI_mPanPan1-v21269,944,019 - 70,147,364 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A69,947,969 - 70,151,311 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A56,334,388 - 56,537,647 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A57,470,673 - 57,675,447 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A57,472,615 - 57,673,628 (+)Ensemblpanpan1.1panPan2
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 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01057,933,988 - 58,127,612 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1057,934,025 - 58,127,526 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11057,636,031 - 57,826,015 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01057,915,711 - 58,109,089 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01058,207,432 - 58,401,191 (+)NCBIUU_Cfam_GSD_1.0
Ccdc85a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629225,966,387 - 26,145,213 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364912,426,953 - 2,604,904 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364912,426,566 - 2,604,905 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC85A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl384,958,387 - 85,165,587 (-)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 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1450,529,728 - 50,731,099 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604560,986,809 - 61,186,469 (+)NCBIVero_WHO_p1.0Vero_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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248335,229,333 - 5,407,443 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccdc85a
1938 total Variants
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.


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:


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


RefSeq Acc Id: ENSRNOT00000056813   ⟹   ENSRNOP00000053657
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
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl14102,129,304 - 102,359,058 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113987   ⟹   ENSRNOP00000086775
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: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,327,580 - 106,560,165 (-)NCBI
mRatBN7.214102,126,578 - 102,359,183 (-)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: NM_001415114   ⟹   NP_001402043
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,327,580 - 106,560,165 (-)NCBI
mRatBN7.214102,126,578 - 102,359,183 (-)NCBI
RefSeq Acc Id: XM_039091770   ⟹   XP_038947698
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,329,005 - 106,560,205 (-)NCBI
mRatBN7.214102,126,574 - 102,359,207 (-)NCBI
RefSeq Acc Id: XM_039091772   ⟹   XP_038947700
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,329,005 - 106,560,204 (-)NCBI
mRatBN7.214102,126,574 - 102,359,206 (-)NCBI
RefSeq Acc Id: XM_039091773   ⟹   XP_038947701
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,329,005 - 106,560,202 (-)NCBI
mRatBN7.214102,126,574 - 102,359,205 (-)NCBI
RefSeq Acc Id: XM_039091774   ⟹   XP_038947702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,329,005 - 106,559,033 (-)NCBI
mRatBN7.214102,126,574 - 102,358,072 (-)NCBI
RefSeq Acc Id: XM_039091775   ⟹   XP_038947703
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814106,529,372 - 106,560,203 (-)NCBI
mRatBN7.214102,328,378 - 102,359,206 (-)NCBI
RefSeq Acc Id: NP_001178482   ⟸   NM_001191553
- Peptide Label: isoform 1
- 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 X1
RefSeq Acc Id: XP_038947700   ⟸   XM_039091772
- Peptide Label: isoform X2
- UniProtKB: A0A0G2KAJ5 (UniProtKB/TrEMBL),   A6JQA1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038947701   ⟸   XM_039091773
- Peptide Label: isoform X3
- UniProtKB: A0A8I6A4G3 (UniProtKB/TrEMBL),   A6JQA1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038947702   ⟸   XM_039091774
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038947703   ⟸   XM_039091775
- Peptide Label: isoform X5
- UniProtKB: A6JQA1 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000091651   ⟸   ENSRNOT00000103938
RefSeq Acc Id: ENSRNOP00000086775   ⟸   ENSRNOT00000113987
RefSeq Acc Id: NP_001402043   ⟸   NM_001415114
- Peptide Label: isoform 2
- UniProtKB: A0A8I6GJ51 (UniProtKB/TrEMBL)

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


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 Transcript ENSRNOT00000056813 ENTREZGENE
  ENSRNOT00000056813.3 UniProtKB/TrEMBL
  ENSRNOT00000081981.2 UniProtKB/TrEMBL
  ENSRNOT00000103938 ENTREZGENE
  ENSRNOT00000103938.1 UniProtKB/TrEMBL
  ENSRNOT00000113987.1 UniProtKB/TrEMBL
InterPro DUF2216 UniProtKB/TrEMBL
KEGG Report rno:289855 UniProtKB/TrEMBL
NCBI Gene 289855 ENTREZGENE
PANTHER CCDC85 UniProtKB/TrEMBL
  COILED-COIL DOMAIN-CONTAINING PROTEIN 85A UniProtKB/TrEMBL
  PTHR13546 UniProtKB/TrEMBL
Pfam DUF2216 UniProtKB/TrEMBL
PhenoGen Ccdc85a PhenoGen
RatGTEx ENSRNOG00000003374 RatGTEx
UniProt A0A0G2KAJ5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A4G3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GJ51 ENTREZGENE, UniProtKB/TrEMBL
  A6JQA1 ENTREZGENE, 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 from RGD:9432491 737654 PROVISIONAL
2015-07-29 Ccdc85a  coiled-coil domain containing 85A  LOC100911414  coiled-coil domain-containing protein 85A-like  Data merged from RGD:6493268 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