Ccdc85c (coiled-coil domain containing 85C) - Rat Genome Database

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Gene: Ccdc85c (coiled-coil domain containing 85C) Rattus norvegicus
Analyze
Symbol: Ccdc85c
Name: coiled-coil domain containing 85C
RGD ID: 1589818
Description: Predicted to be involved in cerebral cortex development. Predicted to act upstream of or within several processes, including Notch signaling pathway; establishment of cell polarity; and radial glial cell differentiation. Predicted to be located in adherens junction. Predicted to be active in apical junction complex. Used to study hydrocephalus. Orthologous to human CCDC85C (coiled-coil domain containing 85C); INTERACTS WITH 3-chloropropane-1,2-diol; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: coiled-coil domain-containing protein 85C; LOC690965; similar to CG17265-PA
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Ccdc85cem1Kyo
Genetic Models: F344-Ccdc85cem1Kyo
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86132,877,851 - 132,948,744 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl6132,879,562 - 132,948,623 (-)EnsemblGRCr8
mRatBN7.26127,113,440 - 127,184,328 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6127,113,442 - 127,184,371 (-)EnsemblmRatBN7.2
Rnor_6.06132,113,806 - 132,183,434 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06141,284,186 - 141,353,658 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.46132,572,485 - 132,641,431 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera6124,672,684 - 124,742,377 (-)NCBICelera
Cytogenetic Map6q32NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View
hydrocephalus  (IMP,ISS)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Pathological characteristics of Ccdc85c knockout rats: a rat model of genetic hydrocephalus. Konishi S, etal., Exp Anim. 2020 Jan 29;69(1):26-33. doi: 10.1538/expanim.19-0005. Epub 2019 Jul 23.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22056358   PMID:25644709   PMID:34657927  


Genomics

Comparative Map Data
Ccdc85c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86132,877,851 - 132,948,744 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl6132,879,562 - 132,948,623 (-)EnsemblGRCr8
mRatBN7.26127,113,440 - 127,184,328 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6127,113,442 - 127,184,371 (-)EnsemblmRatBN7.2
Rnor_6.06132,113,806 - 132,183,434 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06141,284,186 - 141,353,658 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.46132,572,485 - 132,641,431 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera6124,672,684 - 124,742,377 (-)NCBICelera
Cytogenetic Map6q32NCBI
CCDC85C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381499,500,190 - 99,604,207 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1499,500,190 - 99,604,207 (-)Ensemblhg38GRCh38
GRCh371499,966,527 - 100,070,544 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361499,046,540 - 99,140,110 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1480,032,485 - 80,125,607 (-)NCBICelera
Cytogenetic Map14q32.2NCBI
HuRef1480,161,003 - 80,254,066 (-)NCBIHuRef
CHM1_11499,915,361 - 100,008,351 (-)NCBICHM1_1
T2T-CHM13v2.01493,731,756 - 93,835,650 (-)NCBIT2T-CHM13v2.0
Ccdc85c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912108,169,858 - 108,244,111 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12108,169,861 - 108,241,684 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3812108,203,599 - 108,277,852 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12108,203,602 - 108,275,425 (-)Ensemblmm10GRCm38
MGSCv3712109,444,555 - 109,513,627 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3612108,654,152 - 108,723,483 (-)NCBIMGSCv36mm8
Celera12109,446,564 - 109,515,546 (-)NCBICelera
Cytogenetic Map12F1NCBI
cM Map1259.23NCBI
Ccdc85c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543820,853,560 - 20,909,510 (-)Ensembl
ChiLan1.0NW_00495543820,851,085 - 20,909,512 (-)NCBIChiLan1.0ChiLan1.0
CCDC85C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v215100,666,643 - 100,760,232 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11499,883,139 - 99,976,695 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01480,134,889 - 80,229,717 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11499,458,198 - 99,550,546 (-)NCBIPanPan1.1PanPan1.1panPan2
CCDC85C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1867,930,372 - 68,006,689 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl867,929,555 - 68,004,891 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha867,450,734 - 67,528,156 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0868,214,408 - 68,291,855 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl868,215,298 - 68,292,190 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1867,875,375 - 67,952,761 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0867,941,872 - 68,019,111 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0868,338,989 - 68,416,468 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ccdc85c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244086406,693,763 - 6,765,570 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366043,319,799 - 3,388,781 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366043,316,898 - 3,388,687 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC85C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7120,514,491 - 120,597,318 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.17120,514,488 - 120,597,409 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27128,124,329 - 128,148,522 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC85C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12477,470,947 - 77,560,425 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2477,471,048 - 77,560,331 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605364,606,196 - 64,701,019 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc85c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247344,310,607 - 4,366,209 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247344,310,662 - 4,366,209 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ccdc85c
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v17125,873,822 - 125,946,237 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ccdc85c
2608 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6112483610147156653Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6114241077147156653Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)668767270135411972Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)688019181136741135Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)690871046135871046Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)693560258136550638Rat
1641917Colcr5Colorectal carcinoma resistance QTL 53.180.0009intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)698944780143944780Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)6100704576136029228Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6110921244147156653Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)679198463144254945Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6106095977147156653Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)693778632138778632Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)690871046135871046Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)693560258136550638Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6118366855147156653Rat
2312560Pur20Proteinuria QTL 202.10.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)6131392689143944780Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6101593607138161926Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6122236101147156653Rat
1581550Pur8Proteinuria QTL 8urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)693560258136550638Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)6101593607146593607Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6121444670147156653Rat


Genetic Models
This gene Ccdc85c is modified in the following models/strains:
F344-Ccdc85cem1Kyo    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 18 49 67 138 95 11 48 36 32 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000095434   ⟹   ENSRNOP00000076803
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl6132,879,562 - 132,948,623 (-)Ensembl
mRatBN7.2 Ensembl6127,113,442 - 127,184,371 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104756   ⟹   ENSRNOP00000093459
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl6132,879,562 - 132,948,623 (-)Ensembl
mRatBN7.2 Ensembl6127,113,442 - 127,184,371 (-)Ensembl
RefSeq Acc Id: XM_006240553   ⟹   XP_006240615
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86132,877,851 - 132,948,744 (-)NCBI
mRatBN7.26127,113,440 - 127,184,327 (-)NCBI
Rnor_6.06132,113,806 - 132,183,434 (-)NCBI
Rnor_5.06141,284,186 - 141,353,658 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039113371   ⟹   XP_038969299
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86132,877,851 - 132,948,744 (-)NCBI
mRatBN7.26127,113,440 - 127,184,328 (-)NCBI
RefSeq Acc Id: XM_039113372   ⟹   XP_038969300
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86132,877,851 - 132,948,741 (-)NCBI
mRatBN7.26127,113,440 - 127,184,325 (-)NCBI
RefSeq Acc Id: XM_039113373   ⟹   XP_038969301
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86132,877,851 - 132,948,743 (-)NCBI
mRatBN7.26127,113,440 - 127,184,326 (-)NCBI
RefSeq Acc Id: XP_006240615   ⟸   XM_006240553
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_038969299   ⟸   XM_039113371
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038969301   ⟸   XM_039113373
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038969300   ⟸   XM_039113372
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000076803   ⟸   ENSRNOT00000095434
Ensembl Acc Id: ENSRNOP00000093459   ⟸   ENSRNOT00000104756

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:1589818 AgrOrtholog
BioCyc Gene G2FUF-36308 BioCyc
Ensembl Genes ENSRNOG00000065213 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000095434 ENTREZGENE
  ENSRNOT00000095434.2 UniProtKB/TrEMBL
  ENSRNOT00000104756 ENTREZGENE
  ENSRNOT00000104756.2 UniProtKB/TrEMBL
InterPro CCDC85 UniProtKB/TrEMBL
NCBI Gene 690965 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 85C UniProtKB/TrEMBL
  PTHR13546 UniProtKB/TrEMBL
Pfam CCDC85 UniProtKB/TrEMBL
PhenoGen Ccdc85c PhenoGen
RatGTEx ENSRNOG00000065213 RatGTEx
UniProt A0A8I5YBH3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GKA8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Ccdc85c  coiled-coil domain containing 85C  Ccdc85c  coiled-coil domain containing 85C  Data merged from RGD:149736150 737654 PROVISIONAL
2021-08-09 Ccdc85c  coiled-coil domain containing 85C      Symbol and Name status set to provisional 45752 PROVISIONAL
2010-04-23 Ccdc85c  coiled-coil domain containing 85C  LOC690965  similar to CG17265-PA  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC690965  similar to CG17265-PA  LOC684166  similar to CG17265-PA  Data merged from RGD:1593889 1643240 APPROVED
2006-11-20 LOC690965  similar to CG17265-PA      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC684166  similar to CG17265-PA      Symbol and Name status set to provisional 70820 PROVISIONAL