Ccer1 (coiled-coil glutamate-rich protein 1) - Rat Genome Database

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Gene: Ccer1 (coiled-coil glutamate-rich protein 1) Rattus norvegicus
Analyze
Symbol: Ccer1
Name: coiled-coil glutamate-rich protein 1
RGD ID: 1560042
Description: Orthologous to human CCER1 (coiled-coil glutamate rich protein 1); INTERACTS WITH 3-chloropropane-1,2-diol; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: coiled-coil domain-containing glutamate-rich protein 1; hypothetical protein LOC500825; LOC500825; uncharacterized protein C12orf12 homolog
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
GRCr8734,371,735 - 34,413,638 (+)NCBIGRCr8
mRatBN7.2732,485,063 - 32,521,296 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl732,485,041 - 32,488,394 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx734,460,996 - 34,462,728 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0736,642,738 - 36,644,470 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0736,383,557 - 36,385,289 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0738,945,637 - 38,965,940 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl738,945,836 - 38,947,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0738,986,664 - 38,989,227 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4735,209,832 - 35,211,564 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera729,522,700 - 29,524,432 (+)NCBICelera
Cytogenetic Map7q13NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
2. 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.

Genomics

Comparative Map Data
Ccer1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8734,371,735 - 34,413,638 (+)NCBIGRCr8
mRatBN7.2732,485,063 - 32,521,296 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl732,485,041 - 32,488,394 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx734,460,996 - 34,462,728 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0736,642,738 - 36,644,470 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0736,383,557 - 36,385,289 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0738,945,637 - 38,965,940 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl738,945,836 - 38,947,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0738,986,664 - 38,989,227 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4735,209,832 - 35,211,564 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera729,522,700 - 29,524,432 (+)NCBICelera
Cytogenetic Map7q13NCBI
CCER1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381290,952,215 - 90,955,176 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1290,905,622 - 90,955,176 (-)EnsemblGRCh38hg38GRCh38
GRCh371291,345,992 - 91,348,953 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361289,870,123 - 89,873,084 (-)NCBINCBI36Build 36hg18NCBI36
Celera1291,017,121 - 91,020,082 (-)NCBICelera
Cytogenetic Map12q21.33NCBI
HuRef1288,413,737 - 88,416,698 (-)NCBIHuRef
CHM1_11291,310,962 - 91,313,924 (-)NCBICHM1_1
T2T-CHM13v2.01290,929,723 - 90,932,684 (-)NCBIT2T-CHM13v2.0
Ccer1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391097,528,921 - 97,530,788 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1097,528,921 - 97,530,785 (+)EnsemblGRCm39 Ensembl
GRCm381097,693,059 - 97,694,926 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1097,693,059 - 97,694,923 (+)EnsemblGRCm38mm10GRCm38
MGSCv371097,155,693 - 97,157,560 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361097,122,747 - 97,124,614 (+)NCBIMGSCv36mm8
Celera1099,663,956 - 99,665,823 (+)NCBICelera
Cytogenetic Map10C3NCBI
cM Map1050.38NCBI
Ccer1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540528,171,715 - 28,173,046 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540528,171,582 - 28,173,380 (-)NCBIChiLan1.0ChiLan1.0
CCER1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21098,937,353 - 98,988,537 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11298,933,747 - 98,984,931 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01288,474,401 - 88,488,543 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11291,802,243 - 91,804,038 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1291,802,357 - 91,803,568 (-)Ensemblpanpan1.1panPan2
CCER1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11531,661,233 - 31,663,229 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1532,115,974 - 32,117,900 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01532,317,044 - 32,318,978 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1532,317,152 - 32,318,486 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11531,610,001 - 31,611,942 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01531,673,292 - 31,675,253 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01531,966,500 - 31,968,441 (-)NCBIUU_Cfam_GSD_1.0
Ccer1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494528,518,325 - 28,521,213 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365077,715,429 - 7,716,661 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365077,715,401 - 7,716,714 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCER1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl591,884,653 - 91,885,919 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1591,884,005 - 91,886,280 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2596,363,273 - 96,365,006 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCER1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11186,362,756 - 86,364,558 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1186,362,902 - 86,364,170 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037158,820,832 - 158,822,746 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccer1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475015,699,410 - 15,701,384 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccer1
368 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:58
Interacting mature miRNAs:62
Transcripts:ENSRNOT00000006455
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71557388960573889Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)71700459862004598Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)71903280735526300Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)71965431749753746Rat
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)71965431749753746Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)71965431752888450Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72673740163902784Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)72940968353612950Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)72940968374409683Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73111283276112832Rat


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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system appendage
High
Medium 7
Low 1 1
Below cutoff 1 4 3 2 3 3 5 7 8 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006455   ⟹   ENSRNOP00000006455
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl732,485,041 - 32,488,394 (+)Ensembl
Rnor_6.0 Ensembl738,945,836 - 38,947,568 (+)Ensembl
RefSeq Acc Id: NM_001025052   ⟹   NP_001020223
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8734,371,901 - 34,373,633 (+)NCBI
mRatBN7.2732,485,193 - 32,486,925 (+)NCBI
Rnor_6.0738,945,836 - 38,947,568 (+)NCBI
Rnor_5.0738,986,664 - 38,989,227 (+)NCBI
RGSC_v3.4735,209,832 - 35,211,564 (+)RGD
Celera729,522,700 - 29,524,432 (+)RGD
Sequence:
RefSeq Acc Id: XM_039079739   ⟹   XP_038935667
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8734,371,735 - 34,374,381 (+)NCBI
mRatBN7.2732,485,063 - 32,493,641 (+)NCBI
RefSeq Acc Id: XM_039079740   ⟹   XP_038935668
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8734,371,735 - 34,392,476 (+)NCBI
mRatBN7.2732,485,063 - 32,505,628 (+)NCBI
RefSeq Acc Id: XM_063264099   ⟹   XP_063120169
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8734,374,037 - 34,413,638 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001020223   ⟸   NM_001025052
- UniProtKB: Q6AY45 (UniProtKB/Swiss-Prot),   A6IG70 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006455   ⟸   ENSRNOT00000006455
RefSeq Acc Id: XP_038935668   ⟸   XM_039079740
- Peptide Label: isoform X1
- UniProtKB: Q6AY45 (UniProtKB/Swiss-Prot),   A6IG70 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935667   ⟸   XM_039079739
- Peptide Label: isoform X1
- UniProtKB: Q6AY45 (UniProtKB/Swiss-Prot),   A6IG70 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063120169   ⟸   XM_063264099
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AY45-F1-model_v2 AlphaFold Q6AY45 1-400 view protein structure

Transcriptome

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

Promoters
RGD ID:13695167
Promoter ID:EPDNEW_R5692
Type:initiation region
Name:Ccer1_1
Description:coiled-coil glutamate-rich protein 1
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_6.0738,945,810 - 38,945,870EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560042 AgrOrtholog
BioCyc Gene G2FUF-34281 BioCyc
Ensembl Genes ENSRNOG00000004875 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055005927 UniProtKB/Swiss-Prot
  ENSRNOG00060004863 UniProtKB/Swiss-Prot
  ENSRNOG00065012176 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000006455.4 UniProtKB/Swiss-Prot
  ENSRNOT00055009597 UniProtKB/Swiss-Prot
  ENSRNOT00060008088 UniProtKB/Swiss-Prot
  ENSRNOT00065019776 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7131579 IMAGE-MGC_LOAD
InterPro CCER1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:500825 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:94252 IMAGE-MGC_LOAD
NCBI Gene 500825 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING GLUTAMATE-RICH PROTEIN 1 UniProtKB/Swiss-Prot
  COILED-COIL DOMAIN-CONTAINING GLUTAMATE-RICH PROTEIN 1 UniProtKB/Swiss-Prot
  COILED-COIL DOMAIN-CONTAINING GLUTAMATE-RICH PROTEIN 1 UniProtKB/TrEMBL
  COILED-COIL DOMAIN-CONTAINING GLUTAMATE-RICH PROTEIN 1 UniProtKB/TrEMBL
Pfam CCER1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ccer1 PhenoGen
RatGTEx ENSRNOG00000004875 RatGTEx
  ENSRNOG00055005927 RatGTEx
  ENSRNOG00060004863 RatGTEx
  ENSRNOG00065012176 RatGTEx
UniProt A6IG70 ENTREZGENE, UniProtKB/TrEMBL
  CCER1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-18 Ccer1  coiled-coil glutamate-rich protein 1  LOC500825  hypothetical protein LOC500825  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC500825  hypothetical protein LOC500825      Symbol and Name status set to provisional 70820 PROVISIONAL