Cep20 (centrosomal protein 20) - Rat Genome Database

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Gene: Cep20 (centrosomal protein 20) Rattus norvegicus
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Symbol: Cep20
Name: centrosomal protein 20
RGD ID: 1305823
Description: Predicted to enable identical protein binding activity. Predicted to be involved in cilium assembly. Predicted to be located in centriolar satellite and nucleoplasm. Predicted to be active in centrosome; ciliary basal body; and motile cilium. Orthologous to human CEP20 (centrosomal protein 20); INTERACTS WITH acetamide; bisphenol A; buspirone.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: FGFR1OP N-terminal like; Fopnl; hypothetical protein LOC360461; lisH domain-containing protein FOPNL; LOC360461; RGD1305823; similar to RIKEN cDNA 0610037P05
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
mRatBN7.210714,051 - 736,826 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10714,151 - 736,837 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx105,410,887 - 5,432,672 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01035,133,171 - 35,154,956 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.010725,419 - 747,073 (+)NCBIRnor_WKY
Rnor_6.010730,215 - 751,061 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10730,247 - 751,061 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01011,412,910 - 11,433,757 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410635,532 - 658,264 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110635,549 - 657,924 (+)NCBI
Celera1011,303,582 - 11,325,817 (+)NCBICelera
Cytogenetic Map10q11NCBI
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
centriolar satellite  (ISO)
centriole  (IEA)
centrosome  (IBA,ISO)
ciliary basal body  (IBA,ISO)
motile cilium  (IBA,ISO)
nucleoplasm  (IEA,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:12477932   PMID:15616553   PMID:20551181   PMID:21399614  


Genomics

Comparative Map Data
Cep20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.210714,051 - 736,826 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10714,151 - 736,837 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx105,410,887 - 5,432,672 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01035,133,171 - 35,154,956 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.010725,419 - 747,073 (+)NCBIRnor_WKY
Rnor_6.010730,215 - 751,061 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10730,247 - 751,061 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01011,412,910 - 11,433,757 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410635,532 - 658,264 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110635,549 - 657,924 (+)NCBI
Celera1011,303,582 - 11,325,817 (+)NCBICelera
Cytogenetic Map10q11NCBI
CEP20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381615,865,719 - 15,888,603 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1615,865,719 - 15,888,625 (-)EnsemblGRCh38hg38GRCh38
GRCh371615,959,576 - 15,982,460 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361615,867,078 - 15,889,948 (-)NCBINCBI36Build 36hg18NCBI36
Celera1615,640,063 - 15,662,935 (-)NCBICelera
Cytogenetic Map16p13.11NCBI
HuRef1615,353,088 - 15,375,951 (-)NCBIHuRef
CHM1_11616,043,945 - 16,066,817 (-)NCBICHM1_1
T2T-CHM13v2.01615,870,661 - 15,893,544 (-)NCBIT2T-CHM13v2.0
Cep20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391614,117,105 - 14,136,093 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1614,117,108 - 14,135,269 (-)EnsemblGRCm39 Ensembl
GRCm381614,299,241 - 14,318,229 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1614,299,244 - 14,317,405 (-)EnsemblGRCm38mm10GRCm38
MGSCv371614,299,337 - 14,317,425 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361614,212,822 - 14,230,910 (-)NCBIMGSCv36mm8
Celera1614,904,358 - 14,922,440 (-)NCBICelera
Cytogenetic Map16A1NCBI
Cep20
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955442649,272 - 665,714 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955442650,033 - 665,540 (-)NCBIChiLan1.0ChiLan1.0
LOC103787152
(Pan paniscus - bonobo/pygmy chimpanzee)
No map positions available.
CEP20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1628,016,253 - 28,035,117 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl628,016,317 - 28,033,720 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha629,380,040 - 29,398,898 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0628,179,496 - 28,198,376 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl628,179,551 - 28,198,376 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1627,982,823 - 28,001,681 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0627,873,052 - 27,891,925 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0628,278,273 - 28,297,132 (+)NCBIUU_Cfam_GSD_1.0
Cep20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344115,222,806 - 115,235,917 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365013,318,701 - 3,333,845 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365013,320,671 - 3,333,705 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CEP20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl36,977,215 - 6,996,022 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.136,977,195 - 6,996,024 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CEP20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1514,887,676 - 14,911,655 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl514,887,680 - 14,911,601 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606815,126,785 - 15,150,271 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cep20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624782376,018 - 397,751 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624782378,772 - 432,863 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cep20
24 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat


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 43 38 22 19 22 8 11 74 35 40 11 8
Low 19 19 19 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000083714   ⟹   ENSRNOP00000070710
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl10714,151 - 736,837 (+)Ensembl
Rnor_6.0 Ensembl10730,247 - 751,061 (+)Ensembl
RefSeq Acc Id: NM_001108261   ⟹   NP_001101731
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.210714,125 - 735,912 (+)NCBI
Rnor_6.010730,247 - 751,061 (+)NCBI
Rnor_5.01011,412,910 - 11,433,757 (+)NCBI
RGSC_v3.410635,532 - 658,264 (+)RGD
Celera1011,303,582 - 11,325,817 (+)RGD
Sequence:
RefSeq Acc Id: XM_006245848   ⟹   XP_006245910
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.210714,051 - 735,910 (+)NCBI
Rnor_6.010730,215 - 751,059 (+)NCBI
Rnor_5.01011,412,910 - 11,433,757 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039086246   ⟹   XP_038942174
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.210714,051 - 736,826 (+)NCBI
RefSeq Acc Id: XM_039086247   ⟹   XP_038942175
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.210714,051 - 736,826 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001101731 (Get FASTA)   NCBI Sequence Viewer  
  XP_006245910 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942174 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942175 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58663 (Get FASTA)   NCBI Sequence Viewer  
  EDL84096 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101731   ⟸   NM_001108261
- UniProtKB: B0BN31 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245910   ⟸   XM_006245848
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000070710   ⟸   ENSRNOT00000083714
RefSeq Acc Id: XP_038942175   ⟸   XM_039086247
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942174   ⟸   XM_039086246
- Peptide Label: isoform X2
Protein Domains
LisH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B0BN31-F1-model_v2 AlphaFold B0BN31 1-174 view protein structure

Transcriptome

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

Promoters
RGD ID:13696920
Promoter ID:EPDNEW_R7445
Type:multiple initiation site
Name:Fopnl_1
Description:FGFR1OP N-terminal like
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_6.010730,273 - 730,333EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305823 AgrOrtholog
BioCyc Gene G2FUF-26259 BioCyc
Ensembl Genes ENSRNOG00000053230 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000070710 ENTREZGENE
  ENSRNOP00000070710.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000083714 ENTREZGENE
  ENSRNOT00000083714.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7191394 IMAGE-MGC_LOAD
  IMAGE:8369763 IMAGE-MGC_LOAD
InterPro FOP_dimerisation-dom_N UniProtKB/TrEMBL
  LisH_dimerisation UniProtKB/TrEMBL
KEGG Report rno:360461 UniProtKB/TrEMBL
MGC_CLONE MGC:187652 IMAGE-MGC_LOAD
  MGC:94637 IMAGE-MGC_LOAD
NCBI Gene 360461 ENTREZGENE
Pfam FOP_dimer UniProtKB/TrEMBL
PhenoGen Cep20 PhenoGen
PROSITE LISH UniProtKB/TrEMBL
SMART LisH UniProtKB/TrEMBL
UniProt B0BN31 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-01-17 Cep20  centrosomal protein 20  Fopnl  FGFR1OP N-terminal like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-05-26 Fopnl  FGFR1OP N-terminal like  RGD1305823  similar to RIKEN cDNA 0610037P05  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1305823  similar to RIKEN cDNA 0610037P05  RGD1305823_predicted  similar to RIKEN cDNA 0610037P05 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1305823_predicted  similar to RIKEN cDNA 0610037P05 (predicted)  LOC360461_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC360461_predicted  similar to RIKEN cDNA 0610037P05 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL