Fgf20 (fibroblast growth factor 20) - Rat Genome Database

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Gene: Fgf20 (fibroblast growth factor 20) Rattus norvegicus
Analyze
Symbol: Fgf20
Name: fibroblast growth factor 20
RGD ID: 71068
Description: Enables fibroblast growth factor receptor binding activity and growth factor activity. Acts upstream of or within fibroblast growth factor receptor signaling pathway; positive regulation of ERK1 and ERK2 cascade; and positive regulation of cell population proliferation. Predicted to be located in extracellular region. Predicted to be active in cytoplasm and extracellular space. Human ortholog(s) of this gene implicated in renal agenesis. Orthologous to human FGF20 (fibroblast growth factor 20); PARTICIPATES IN melanoma pathway; mitogen activated protein kinase signaling pathway; INTERACTS WITH ammonium chloride; bisphenol A; chlorpyrifos.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: FGF-20; Fgf4a; fibroblast growth factor 4a
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
mRatBN7.21652,030,853 - 52,037,612 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1652,010,194 - 52,038,204 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1657,345,032 - 57,351,777 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01660,749,898 - 60,756,652 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01655,978,981 - 55,985,730 (+)NCBIRnor_WKY
Rnor_6.01655,152,748 - 55,159,352 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1655,152,748 - 55,159,352 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01654,855,241 - 54,861,845 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41655,386,987 - 55,393,744 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11655,387,061 - 55,393,819 (+)NCBI
Celera1649,920,516 - 49,927,267 (+)NCBICelera
Cytogenetic Map16q12.1NCBI
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
Molecular Pathway Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Gene Data Set MGD Curation, June 12, 2002
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. FGF-20, a novel neurotrophic factor, preferentially expressed in the substantia nigra pars compacta of rat brain. Ohmachi S, etal., Biochem Biophys Res Commun 2000 Oct 22;277(2):355-60.
7. Preferential neurotrophic activity of fibroblast growth factor-20 for dopaminergic neurons through fibroblast growth factor receptor-1c. Ohmachi S, etal., J Neurosci Res. 2003 May 15;72(4):436-43.
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15474354   PMID:16988046   PMID:18524904   PMID:20713518   PMID:22235191   PMID:24157794   PMID:29698669  


Genomics

Comparative Map Data
Fgf20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21652,030,853 - 52,037,612 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1652,010,194 - 52,038,204 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1657,345,032 - 57,351,777 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01660,749,898 - 60,756,652 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01655,978,981 - 55,985,730 (+)NCBIRnor_WKY
Rnor_6.01655,152,748 - 55,159,352 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1655,152,748 - 55,159,352 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01654,855,241 - 54,861,845 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41655,386,987 - 55,393,744 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11655,387,061 - 55,393,819 (+)NCBI
Celera1649,920,516 - 49,927,267 (+)NCBICelera
Cytogenetic Map16q12.1NCBI
FGF20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38816,992,181 - 17,002,345 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl816,992,181 - 17,002,345 (-)EnsemblGRCh38hg38GRCh38
GRCh37816,849,690 - 16,859,854 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36816,894,705 - 16,904,045 (-)NCBINCBI36Build 36hg18NCBI36
Build 34816,894,704 - 16,904,045NCBI
Celera815,816,530 - 15,825,865 (-)NCBICelera
Cytogenetic Map8p22NCBI
HuRef815,395,521 - 15,404,854 (-)NCBIHuRef
CHM1_1817,051,785 - 17,061,117 (-)NCBICHM1_1
T2T-CHM13v2.0817,260,031 - 17,270,196 (-)NCBIT2T-CHM13v2.0
Fgf20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39840,732,207 - 40,739,994 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl840,732,207 - 40,761,372 (-)EnsemblGRCm39 Ensembl
GRCm38840,279,166 - 40,286,953 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl840,279,166 - 40,308,331 (-)EnsemblGRCm38mm10GRCm38
MGSCv37841,364,520 - 41,372,307 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36841,778,574 - 41,785,524 (-)NCBIMGSCv36mm8
Celera842,929,830 - 42,937,595 (-)NCBICelera
Cytogenetic Map8A4NCBI
Fgf20
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955463528,651 - 536,927 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955463528,651 - 536,927 (+)NCBIChiLan1.0ChiLan1.0
FGF20
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1813,151,867 - 13,161,216 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl813,151,867 - 13,161,216 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0816,205,791 - 16,216,257 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
FGF20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11640,330,793 - 40,339,925 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1640,331,307 - 40,339,616 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1640,828,018 - 40,838,484 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01642,383,443 - 42,393,916 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1642,385,213 - 42,394,487 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11640,477,114 - 40,487,581 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01641,020,341 - 41,030,808 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01641,213,558 - 41,224,028 (-)NCBIUU_Cfam_GSD_1.0
Fgf20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494339,079,532 - 39,087,800 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365736,055,261 - 6,062,764 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365736,055,261 - 6,062,764 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FGF20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl174,691,448 - 4,700,367 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1174,691,448 - 4,700,367 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2175,085,166 - 5,094,166 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FGF20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1815,079,507 - 15,089,583 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl815,080,411 - 15,089,451 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605227,190,962 - 27,200,973 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fgf20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476922,310,396 - 22,334,182 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476922,325,936 - 22,334,608 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fgf20
42 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:115
Count of miRNA genes:85
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000000121
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
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162173597566735975Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)163195152060148445Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat

Markers in Region
D16Rat110  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21652,033,902 - 52,034,012 (+)MAPPERmRatBN7.2
Rnor_6.01655,155,643 - 55,155,752NCBIRnor6.0
Rnor_5.01654,858,136 - 54,858,245UniSTSRnor5.0
RGSC_v3.41655,390,034 - 55,390,144RGDRGSC3.4
RGSC_v3.41655,390,035 - 55,390,144UniSTSRGSC3.4
RGSC_v3.11655,390,109 - 55,390,219RGD
Celera1649,923,558 - 49,923,667UniSTS
FHH x ACI Map1625.4898RGD
FHH x ACI Map1625.4898UniSTS
Cytogenetic Map16q12.1UniSTS
Fgf20  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21652,030,852 - 52,031,050 (+)MAPPERmRatBN7.2
Rnor_6.01655,152,748 - 55,152,945NCBIRnor6.0
Rnor_5.01654,855,241 - 54,855,438UniSTSRnor5.0
RGSC_v3.41655,386,987 - 55,387,184UniSTSRGSC3.4
Celera1649,920,516 - 49,920,713UniSTS
Cytogenetic Map16q12.1UniSTS


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

endocrine system exocrine system hemolymphoid system hepatobiliary system nervous system renal system reproductive system
High
Medium
Low 7 6 14 11
Below cutoff 5 3 1 3 28 2 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000121   ⟹   ENSRNOP00000000121
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1652,010,194 - 52,037,612 (+)Ensembl
Rnor_6.0 Ensembl1655,152,748 - 55,159,352 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096927   ⟹   ENSRNOP00000085396
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1652,030,363 - 52,038,204 (+)Ensembl
RefSeq Acc Id: NM_023961   ⟹   NP_076451
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21652,030,853 - 52,037,612 (+)NCBI
Rnor_6.01655,152,748 - 55,159,352 (+)NCBI
Rnor_5.01654,855,241 - 54,861,845 (+)NCBI
RGSC_v3.41655,386,987 - 55,393,744 (+)RGD
Celera1649,920,516 - 49,927,267 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_076451 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAB13763 (Get FASTA)   NCBI Sequence Viewer  
  CAI38635 (Get FASTA)   NCBI Sequence Viewer  
  EDL78810 (Get FASTA)   NCBI Sequence Viewer  
  Q9EST9 (Get FASTA)   NCBI Sequence Viewer  
  VDK10956 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_076451   ⟸   NM_023961
- UniProtKB: Q9EST9 (UniProtKB/Swiss-Prot),   A0A7U3JW60 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000121   ⟸   ENSRNOT00000000121
RefSeq Acc Id: ENSRNOP00000085396   ⟸   ENSRNOT00000096927

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EST9-F1-model_v2 AlphaFold Q9EST9 1-212 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:71068 AgrOrtholog
BioCyc Gene G2FUF-11240 BioCyc
Ensembl Genes ENSRNOG00000000109 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000121.3 UniProtKB/TrEMBL
  ENSRNOP00000085396 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000000121.3 UniProtKB/TrEMBL
  ENSRNOT00000096927 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro FGF20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibroblast_GF_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IL1/FGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:66017 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 66017 ENTREZGENE
PANTHER PTHR11486 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11486:SF72 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam FGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fgf20 PhenoGen
PRINTS HBGFFGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE HBGF_FGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50353 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A7U3JW60 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2Q001_RAT UniProtKB/TrEMBL
  FGF20_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-07-09 Fgf20  fibroblast growth factor 20      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization enriched in the substantia nigra pars compacta 70738
gene_expression enriched in brain 70738
gene_protein 212 amino acids 70738