Fen1 (flap structure-specific endonuclease 1) - Rat Genome Database

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Gene: Fen1 (flap structure-specific endonuclease 1) Rattus norvegicus
Analyze
Symbol: Fen1
Name: flap structure-specific endonuclease 1
RGD ID: 621821
Description: Predicted to enable DNA binding activity; metal ion binding activity; and nuclease activity. Involved in memory. Predicted to be located in chromosome, telomeric region and mitochondrion. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Orthologous to human FEN1 (flap structure-specific endonuclease 1); PARTICIPATES IN base excision repair pathway; DNA replication pathway; non-homologous end joining pathway of double-strand break repair; INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: FEN-1; flap endonuclease 1; flap structure-specific endonuclease; MGC94425
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81216,270,016 - 216,274,873 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1216,269,163 - 216,275,016 (-)EnsemblGRCr8
mRatBN7.21206,845,126 - 206,849,821 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1206,844,884 - 206,850,003 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1215,223,544 - 215,227,912 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01222,278,737 - 222,283,114 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01214,973,736 - 214,978,113 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01226,251,516 - 226,256,160 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1226,251,518 - 226,255,886 (-)Ensemblrn6Rnor6.0
Rnor_5.01233,196,200 - 233,200,756 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41212,688,118 - 212,692,486 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1204,341,544 - 204,345,912 (-)NCBICelera
RGSC_v3.11212,846,547 - 212,850,916 (-)NCBI
Cytogenetic Map1q43NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-dexrazoxane  (ISO)
(+)-schisandrin B  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2'-Methylenebis(4-methyl-6-tert-butylphenol)  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
2-palmitoylglycerol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-chloropropane-1,2-diol  (EXP)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
AM-251  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
biphenyl-4-amine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bromobenzene  (EXP)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carnosic acid  (ISO)
cefaloridine  (EXP)
chromium(6+)  (ISO)
cisplatin  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumarin  (EXP)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
DDE  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenz[a,h]anthracene  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
diclofenac  (ISO)
dimethylarsinous acid  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
erythrosin B  (ISO)
FR900359  (ISO)
fructose  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
glucose  (ISO)
glyphosate  (ISO)
herbicide  (ISO)
hydrogen peroxide  (ISO)
idarubicin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
melatonin  (ISO)
menadione  (ISO)
methimazole  (EXP)
methylparaben  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
myristicin  (ISO)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nickel atom  (ISO)
niclosamide  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
palbociclib  (ISO)
paracetamol  (EXP,ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (EXP,ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (EXP,ISO)
piroxicam  (ISO)
potassium bromate  (ISO)
progesterone  (ISO)
quinoline yellow  (ISO)
resveratrol  (EXP,ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP,ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thalidomide  (ISO)
thapsigargin  (EXP)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
triadimefon  (EXP)
trimellitic anhydride  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vincaleukoblastine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome, telomeric region  (IEA,ISO)
mitochondrion  (IEA,ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)
protein-containing complex  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, etal., Genome Res 1996 Sep;6(9):791-806.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Gene expression of flap endonuclease-1 during cell proliferation and differentiation. Kim IS, etal., Biochim Biophys Acta 2000 Apr 17;1496(2-3):333-40.
5. Haploinsufficiency of Flap endonuclease (Fen1) leads to rapid tumor progression. Kucherlapati M, etal., Proc Natl Acad Sci U S A 2002 Jul 23;99(15):9924-9. Epub 2002 Jul 15.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. GOA pipeline RGD automated data pipeline
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
12. Identification of flap structure-specific endonuclease 1 as a factor involved in long-term memory formation of aversive learning. Saavedra-Rodriguez L, etal., J Neurosci. 2009 May 6;29(18):5726-37.
13. Overexpression and hypomethylation of flap endonuclease 1 gene in breast and other cancers. Singh P, etal., Mol Cancer Res. 2008 Nov;6(11):1710-7.
14. Fen1 mutations result in autoimmunity, chronic inflammation and cancers. Zheng L, etal., Nat Med. 2007 Jul;13(7):812-9. Epub 2007 Jun 24.
Additional References at PubMed
PMID:7961795   PMID:8621570   PMID:11986308   PMID:12162748   PMID:12477932   PMID:12861020   PMID:18499658   PMID:18995831   PMID:19135898   PMID:19946888   PMID:24270157   PMID:25378300  


Genomics

Comparative Map Data
Fen1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81216,270,016 - 216,274,873 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1216,269,163 - 216,275,016 (-)EnsemblGRCr8
mRatBN7.21206,845,126 - 206,849,821 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1206,844,884 - 206,850,003 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1215,223,544 - 215,227,912 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01222,278,737 - 222,283,114 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01214,973,736 - 214,978,113 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01226,251,516 - 226,256,160 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1226,251,518 - 226,255,886 (-)Ensemblrn6Rnor6.0
Rnor_5.01233,196,200 - 233,200,756 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41212,688,118 - 212,692,486 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1204,341,544 - 204,345,912 (-)NCBICelera
RGSC_v3.11212,846,547 - 212,850,916 (-)NCBI
Cytogenetic Map1q43NCBI
FEN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381161,792,911 - 61,797,238 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1161,792,725 - 61,797,238 (+)Ensemblhg38GRCh38
GRCh371161,560,383 - 61,564,710 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361161,316,726 - 61,321,286 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341161,316,725 - 61,321,284NCBI
Celera1158,895,562 - 58,900,122 (+)NCBICelera
Cytogenetic Map11q12.2NCBI
HuRef1157,888,343 - 57,892,951 (+)NCBIHuRef
CHM1_11161,443,324 - 61,447,931 (+)NCBICHM1_1
T2T-CHM13v2.01161,781,828 - 61,786,155 (+)NCBIT2T-CHM13v2.0
Fen1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391910,176,496 - 10,181,757 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1910,176,496 - 10,181,533 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381910,199,132 - 10,204,393 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1910,199,132 - 10,204,169 (-)Ensemblmm10GRCm38
MGSCv371910,273,629 - 10,278,433 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361910,266,184 - 10,270,988 (-)NCBIMGSCv36mm8
Celera1910,895,056 - 10,899,860 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map196.54NCBI
Fen1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555115,918,667 - 5,922,506 (-)Ensembl
ChiLan1.0NW_0049555115,918,667 - 5,922,506 (-)NCBIChiLan1.0ChiLan1.0
FEN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2962,961,058 - 62,965,581 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11164,004,700 - 64,009,234 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01157,092,270 - 57,096,828 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11160,452,750 - 60,457,354 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1160,455,474 - 60,456,616 (+)EnsemblpanPan2panpan1.1
FEN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11854,680,627 - 54,686,502 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1854,681,760 - 54,682,902 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1853,255,851 - 53,261,359 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01855,727,859 - 55,733,353 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1855,727,862 - 55,732,595 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11854,788,426 - 54,793,937 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01854,410,077 - 54,415,591 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01855,290,343 - 55,295,859 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Fen1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494711,214,860 - 11,218,941 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365811,328,685 - 1,332,728 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365811,328,685 - 1,332,713 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FEN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl29,752,013 - 9,756,728 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.129,752,004 - 9,756,863 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.229,241,379 - 9,246,239 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FEN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1112,057,620 - 12,062,185 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666038109,431,560 - 109,436,129 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fen1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624926608,874 - 612,995 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624926608,874 - 613,487 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Fen1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v129,677,143 - 9,681,870 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Fen1
24 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:116
Count of miRNA genes:79
Interacting mature miRNAs:96
Transcripts:ENSRNOT00000027842
Prediction methods: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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1160111531262090437Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1160573753266453731Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1207243873252243873Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1186658830266453731Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1210980612255980612Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1177339686222339686Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1181059071226059071Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1181059071226059071Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1182039247227039247Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1183564652228564652Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1205233991267096252Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1186658830266453731Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1176288899270518180Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1193964073238964073Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1162548015270518180Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1181059071226059071Rat
152025235Bw194Body weight QTL 1944.86body mass (VT:0001259)1132966869252856240Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1205233991267096252Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1210980612255980612Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1139442053223964440Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1152919152268496042Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1160111531262090437Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1181059071226059071Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)199645382221502378Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1181059071226059071Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1194575422239575422Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1193400541238400541Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1200449456256003563Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1182535316227535316Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1146080545243492863Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1103779152223964440Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1207163993269633915Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1210980612255980612Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1181059071226059071Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1153679879232414077Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1160574007235238518Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1181059071226059071Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1210980612255980612Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1207243873252243873Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1160111426262090599Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1181059071226059071Rat
2314011Gluco56Glucose level QTL 56blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1209203273254203273Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1202543537247543537Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1154961463266453731Rat
1358292Cm37Cardiac mass QTL 376.28e-07heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1205674651250674651Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1207243873252243873Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1208479811269633915Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1203300512229359342Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1180739993225739993Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1191190115223964326Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1172718770228180370Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
1358916Kidm22Kidney mass QTL 223.32kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1212738576257738576Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1194786607262083703Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1188241285250779312Rat
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1208798288253798288Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1139442053223964440Rat
1300168Bp170Blood pressure QTL 1702.76arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1192995199237995199Rat
61403Niddm4Non-insulin dependent diabetes mellitus QTL 4blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1201464383246464383Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1186298393231298393Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1203675682248675682Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1205674651250674651Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1185979875230979875Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1197807365233480676Rat
2293700Bmd27Bone mineral density QTL 276.60.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1210980612255980612Rat
2293701Bmd34Bone mineral density QTL 348.30.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)1210980612255980612Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1193400541238400541Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1202851915223964440Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1173363824227535316Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1207099883252099883Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1210980612255980612Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1191260175236260175Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1111949780228180370Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1185857683270518180Rat
2325727Pia41Pristane induced arthritis QTL 41joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1188241285233241285Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1210980612255980612Rat

Markers in Region
RH133280  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21206,845,286 - 206,845,486 (+)MAPPERmRatBN7.2
Rnor_6.01226,251,671 - 226,251,870NCBIRnor6.0
Rnor_5.01233,196,355 - 233,196,554UniSTSRnor5.0
RGSC_v3.41212,688,271 - 212,688,470UniSTSRGSC3.4
Celera1204,341,697 - 204,341,896UniSTS
RH 3.4 Map11510.3UniSTS
Cytogenetic Map1q43UniSTS
D1Bda51  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21206,845,294 - 206,845,537 (+)MAPPERmRatBN7.2
Rnor_6.01226,251,679 - 226,251,921NCBIRnor6.0
Rnor_5.01233,196,363 - 233,196,605UniSTSRnor5.0
RGSC_v3.41212,688,279 - 212,688,521UniSTSRGSC3.4
Celera1204,341,705 - 204,341,947UniSTS
Cytogenetic Map1q43UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000027842   ⟹   ENSRNOP00000027842
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1216,269,502 - 216,275,016 (-)Ensembl
mRatBN7.2 Ensembl1206,844,884 - 206,849,663 (-)Ensembl
Rnor_6.0 Ensembl1226,251,518 - 226,255,886 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104683   ⟹   ENSRNOP00000081266
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1216,269,790 - 216,274,607 (-)Ensembl
mRatBN7.2 Ensembl1206,844,968 - 206,850,003 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106648   ⟹   ENSRNOP00000078106
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1216,269,163 - 216,274,494 (-)Ensembl
mRatBN7.2 Ensembl1206,844,968 - 206,850,003 (-)Ensembl
RefSeq Acc Id: NM_001414456   ⟹   NP_001401385
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81216,270,016 - 216,274,396 (-)NCBI
mRatBN7.21206,845,132 - 206,849,512 (-)NCBI
RefSeq Acc Id: NM_053430   ⟹   NP_445882
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81216,270,016 - 216,274,396 (-)NCBI
mRatBN7.21206,845,132 - 206,849,512 (-)NCBI
Rnor_6.01226,251,518 - 226,255,886 (-)NCBI
Rnor_5.01233,196,200 - 233,200,756 (-)NCBI
RGSC_v3.41212,688,118 - 212,692,486 (-)RGD
Celera1204,341,544 - 204,345,912 (-)RGD
Sequence:
RefSeq Acc Id: XM_006231072   ⟹   XP_006231134
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81216,270,016 - 216,274,873 (-)NCBI
mRatBN7.21206,845,129 - 206,849,821 (-)NCBI
Rnor_6.01226,251,516 - 226,256,156 (-)NCBI
Rnor_5.01233,196,200 - 233,200,756 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231074   ⟹   XP_006231136
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81216,270,016 - 216,274,872 (-)NCBI
mRatBN7.21206,845,129 - 206,849,819 (-)NCBI
Rnor_6.01226,251,516 - 226,256,160 (-)NCBI
Rnor_5.01233,196,200 - 233,200,756 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008760245   ⟹   XP_008758467
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81216,270,016 - 216,274,127 (-)NCBI
mRatBN7.21206,845,126 - 206,849,524 (-)NCBI
Rnor_6.01226,251,516 - 226,255,630 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063275837   ⟹   XP_063131907
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81216,270,016 - 216,274,629 (-)NCBI
RefSeq Acc Id: NP_445882   ⟸   NM_053430
- UniProtKB: Q5XIP6 (UniProtKB/Swiss-Prot),   Q9JHW7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006231136   ⟸   XM_006231074
- Peptide Label: isoform X2
- UniProtKB: Q9JHW7 (UniProtKB/Swiss-Prot),   Q5XIP6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006231134   ⟸   XM_006231072
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008758467   ⟸   XM_008760245
- Peptide Label: isoform X2
- UniProtKB: Q9JHW7 (UniProtKB/Swiss-Prot),   Q5XIP6 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000027842   ⟸   ENSRNOT00000027842
Ensembl Acc Id: ENSRNOP00000081266   ⟸   ENSRNOT00000104683
Ensembl Acc Id: ENSRNOP00000078106   ⟸   ENSRNOT00000106648
RefSeq Acc Id: NP_001401385   ⟸   NM_001414456
- UniProtKB: Q5XIP6 (UniProtKB/Swiss-Prot),   Q9JHW7 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063131907   ⟸   XM_063275837
- Peptide Label: isoform X2
- UniProtKB: Q9JHW7 (UniProtKB/Swiss-Prot),   Q5XIP6 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIP6-F1-model_v2 AlphaFold Q5XIP6 1-380 view protein structure

Transcriptome

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

Promoters
RGD ID:13690767
Promoter ID:EPDNEW_R1292
Type:initiation region
Name:Fen1_1
Description:flap structure-specific endonuclease 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_6.01226,255,869 - 226,255,929EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621821 AgrOrtholog
BioCyc Gene G2FUF-56439 BioCyc
Ensembl Genes ENSRNOG00000020531 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000027842.4 UniProtKB/Swiss-Prot
  ENSRNOT00000104683 ENTREZGENE
  ENSRNOT00000104683.1 UniProtKB/Swiss-Prot
  ENSRNOT00000106648 ENTREZGENE
  ENSRNOT00000106648.1 UniProtKB/Swiss-Prot
Gene3D-CATH 5' to 3' exonuclease, C-terminal subdomain UniProtKB/Swiss-Prot
  5'-nuclease UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7134402 IMAGE-MGC_LOAD
InterPro 5-3_exonuclease_C_sf UniProtKB/Swiss-Prot
  Flap_endonuc UniProtKB/Swiss-Prot
  HhH2 UniProtKB/Swiss-Prot
  PIN-like_dom_sf UniProtKB/Swiss-Prot
  XPG-I_dom UniProtKB/Swiss-Prot
  XPG/Rad2 UniProtKB/Swiss-Prot
  XPG_CS UniProtKB/Swiss-Prot
  XPG_DNA_repair_N UniProtKB/Swiss-Prot
KEGG Report rno:84490 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94425 IMAGE-MGC_LOAD
NCBI Gene 84490 ENTREZGENE
PANTHER FLAP ENDONUCLEASE 1 UniProtKB/Swiss-Prot
  PTHR11081 UniProtKB/Swiss-Prot
Pfam XPG_I UniProtKB/Swiss-Prot
  XPG_N UniProtKB/Swiss-Prot
PhenoGen Fen1 PhenoGen
PRINTS XPGRADSUPER UniProtKB/Swiss-Prot
PROSITE XPG_1 UniProtKB/Swiss-Prot
  XPG_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000020531 RatGTEx
SMART HhH2 UniProtKB/Swiss-Prot
  XPGI UniProtKB/Swiss-Prot
  XPGN UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47807 UniProtKB/Swiss-Prot
  SSF88723 UniProtKB/Swiss-Prot
UniProt FEN1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q9JHW7 ENTREZGENE
UniProt Secondary Q9JHW7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Fen1  flap structure-specific endonuclease 1    Flap structure-specific endonuclease 1  Name updated 1299863 APPROVED
2002-08-07 Fen1        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression co-expressed with the proliferating cell nuclear antigen (PCNA) in young kidney 708331