Foxn1 (forkhead box N1) - Rat Genome Database

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Gene: Foxn1 (forkhead box N1) Mus musculus
Analyze
Symbol: Foxn1
Name: forkhead box N1
RGD ID: 11489
MGI Page MGI
Description: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and sequence-specific DNA binding activity. Involved in several processes, including lymphoid lineage cell migration into thymus; regulation of positive thymic T cell selection; and thymus epithelium morphogenesis. Acts upstream of or within several processes, including nail development; regulation of T cell differentiation in thymus; and thymus development. Predicted to be located in nucleus. Is expressed in several structures, including central nervous system; foregut; integumental system; male reproductive gland or organ; and thymus. Used to study DiGeorge syndrome and T-cell immunodeficiency, congenital alopecia, and nail dystrophy. Human ortholog(s) of this gene implicated in T-cell immunodeficiency, congenital alopecia, and nail dystrophy; alopecia; nail disease; and primary immunodeficiency disease. Orthologous to human FOXN1 (forkhead box N1).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: D11Bhm185e; Fkh19; forkhead box protein N1; hepatocyte nuclear factor 3 forkhead homolog 11; HFH-11; Hfh11; HNF-3/forkhead homolog 11; MGC124316; MGC124317; nu; nude; wh; Whn; winged-helix transcription factor nude
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391178,248,403 - 78,277,597 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,248,403 - 78,277,384 (-)EnsemblGRCm39 Ensembl
GRCm381178,357,577 - 78,386,783 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,357,577 - 78,386,558 (-)EnsemblGRCm38mm10GRCm38
MGSCv371178,171,790 - 78,200,060 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361178,174,483 - 78,202,753 (-)NCBIMGSCv36mm8
Celera1187,990,370 - 88,018,640 (-)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal CD4-positive, alpha beta T cell morphology  (IAGP)
abnormal CD8-positive, alpha beta T cell morphology  (IAGP)
abnormal circulating cytokine level  (IAGP)
abnormal circulating gonadotropin level  (IAGP)
abnormal coat/ hair morphology  (IAGP)
abnormal compact bone morphology  (IAGP)
abnormal corneocyte morphology  (IAGP)
abnormal cutaneous collagen fibril morphology  (IAGP)
abnormal embryonic tissue morphology  (IAGP)
abnormal epidermal layer morphology  (IAGP)
abnormal epidermis stratum basale morphology  (IAGP)
abnormal epidermis stratum corneum morphology  (IAGP)
abnormal epidermis stratum granulosum morphology  (IAGP)
abnormal estrous cycle  (IAGP)
abnormal hair cortex keratinization  (IAGP)
abnormal hair cortex morphology  (IAGP)
abnormal hair cuticle  (IAGP)
abnormal hair follicle bulb morphology  (IEA)
abnormal hair follicle development  (IAGP)
abnormal hair follicle inner root sheath morphology  (IAGP)
abnormal hair follicle morphology  (IAGP)
abnormal hair growth  (IAGP)
abnormal hair shaft morphology  (IAGP)
abnormal humoral immune response  (IEA)
abnormal immune system cell morphology  (IEA)
abnormal immune system morphology  (IEA)
abnormal immune system organ morphology  (IEA)
abnormal immune system physiology  (IEA)
abnormal leukocyte cell number  (IAGP)
abnormal liver morphology  (IAGP)
abnormal lymph node morphology  (IAGP)
abnormal lymph node T cell domain morphology  (IAGP)
abnormal lymphocyte cell number  (IAGP)
abnormal muscle morphology  (IAGP)
abnormal nail bed morphology  (IAGP)
abnormal nail matrix morphology  (IAGP)
abnormal nail morphology  (IAGP)
abnormal nail plate morphology  (IAGP)
abnormal Peyer's patch germinal center morphology  (IAGP)
abnormal Peyer's patch morphology  (IAGP)
abnormal positive T cell selection  (IAGP)
abnormal response/metabolism to endogenous compounds  (IAGP)
abnormal skin morphology  (IEA)
abnormal skin pigmentation  (IAGP)
abnormal spleen morphology  (IAGP)
abnormal spleen physiology  (IAGP)
abnormal splenic cell ratio  (IAGP)
abnormal T cell activation  (IAGP)
abnormal T cell differentiation  (IAGP)
abnormal T cell physiology  (IAGP)
abnormal third pharyngeal pouch morphology  (IAGP)
abnormal thymus cell ratio  (IAGP)
abnormal thymus cortex morphology  (IAGP)
abnormal thymus corticomedullary boundary morphology  (IAGP)
abnormal thymus development  (IAGP)
abnormal thymus epithelium morphology  (IAGP)
abnormal thymus involution  (IAGP)
abnormal thymus medulla morphology  (IAGP)
abnormal thymus morphology  (IAGP)
abnormal thymus physiology  (IAGP)
abnormal trabecular bone morphology  (IAGP)
abnormal venule morphology  (IAGP)
abnormal vibrissa morphology  (IEA)
absent B cells  (IAGP)
absent lymph nodes  (IAGP)
absent Peyer's patches  (IAGP)
absent spleen  (IAGP)
absent T cells  (IAGP)
absent thymus cortex  (IAGP)
absent thymus medulla  (IAGP)
absent vibrissae  (IAGP)
ascites  (IAGP)
asthenozoospermia  (IAGP)
athymia  (IAGP)
blepharitis  (IAGP)
brittle hair  (IEA)
cachexia  (IEA)
chromosomal instability  (IAGP)
coiled sperm flagellum  (IAGP)
corneal vascularization  (IAGP)
curly vibrissae  (IEA)
decreased body size  (IAGP)
decreased body weight  (IAGP)
decreased CD4-positive, alpha-beta T cell number  (IAGP)
decreased CD8-positive, alpha-beta T cell number  (IAGP)
decreased circulating alanine transaminase level  (IAGP)
decreased circulating follicle stimulating hormone level  (IAGP)
decreased circulating interleukin-2 level  (IAGP)
decreased circulating interleukin-6 level  (IAGP)
decreased circulating luteinizing hormone level  (IAGP)
decreased circulating tumor necrosis factor level  (IAGP)
decreased double-negative T cell number  (IAGP)
decreased double-positive T cell number  (IAGP)
decreased gamma-delta intraepithelial T cell number  (IAGP)
decreased immunoglobulin level  (IEA)
decreased incidence of tumors by chemical induction  (IAGP)
decreased inflammatory response  (IAGP)
decreased interferon-gamma secretion  (IAGP)
decreased leukocyte cell number  (IAGP)
decreased litter size  (IEA)
decreased lymphocyte cell number  (IAGP)
decreased lymphoma incidence  (IEA)
decreased metastatic potential  (IAGP)
decreased single-positive T cell number  (IAGP)
decreased skeletal muscle fiber size  (IAGP)
decreased skeletal muscle mass  (IAGP)
decreased susceptibility to bacterial infection  (IAGP)
decreased susceptibility to parasitic infection  (IAGP)
decreased susceptibility to Retroviridae infection  (IAGP)
decreased T cell number  (IAGP)
decreased thymocyte number  (IAGP)
decreased thymus weight  (IAGP)
decreased tumor incidence  (IAGP)
deformed nails  (IAGP)
female infertility  (IAGP)
hairless  (IAGP)
hydrometra  (IEA)
impaired spatial learning  (IAGP)
increased B cell number  (IAGP)
increased bone mineral density  (IAGP)
increased DN1 thymic pro-T cell number  (IAGP)
increased double-positive T cell number  (IAGP)
increased eosinophil cell number  (IEA)
increased erythroid progenitor cell number  (IAGP)
increased granulocyte number  (IEA)
increased IgA level  (IAGP)
increased immature B cell number  (IAGP)
increased incidence of corneal inflammation  (IAGP)
increased length of allograft survival  (IAGP)
increased neutrophil cell number  (IEA)
increased or absent threshold for auditory brainstem response  (IEA)
increased plasmacytoma incidence  (IAGP)
increased sarcoma incidence  (IEA)
increased skeletal muscle fiber size  (IAGP)
increased susceptibility to Herpesvirales infection  (IAGP)
increased susceptibility to Herpesvirales infection induced morbidity/mortality  (IAGP)
increased susceptibility to induced arthritis  (IAGP)
increased T cell number  (IAGP)
increased thymocyte apoptosis  (IAGP)
infertility  (IAGP)
lymph node hypoplasia  (IEA)
nail dystrophy  (IAGP)
no abnormal phenotype detected  (IAGP)
postnatal growth retardation  (IAGP)
postnatal lethality, incomplete penetrance  (IAGP)
premature death  (IAGP)
preweaning lethality, incomplete penetrance  (IEA)
reduced female fertility  (IEA)
reduced hair shaft melanin granule number  (IAGP)
reduced male fertility  (IAGP)
short nails  (IAGP)
short vibrissae  (IAGP)
small ovary  (IAGP)
small spleen  (IAGP)
small superior vagus ganglion  (IEA)
small thymus  (IAGP)
sparse vibrissae  (IEA)
spleen hypoplasia  (IEA)
thin skin  (IAGP)
thrombocytosis  (IAGP)
thymus atrophy  (IAGP)
thymus cyst  (IAGP)
thymus hyperplasia  (IAGP)
thymus hypoplasia  (IAGP)
underdeveloped hair follicles  (IAGP)
wavy vibrissae  (IAGP)
wrinkled skin  (IEA)
References

References - curated
# Reference Title Reference Citation
1. Exposing the human nude phenotype. Frank J, etal., Nature. 1999 Apr 8;398(6727):473-4.
2. Hypomorphic phenotype of Foxn1 gene-modified rats by CRISPR/Cas9 system. Goto T, etal., Transgenic Res. 2016 Aug;25(4):533-44. doi: 10.1007/s11248-016-9941-9. Epub 2016 Mar 2.
3. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
4. MGDs mouse GO annotations MGD data from the GO Consortium
5. MGD IEA MGD IEA
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. Mouse MP Annotation Import Pipeline RGD automated import pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
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PMID:29117183   PMID:29136505   PMID:29184034   PMID:29193031   PMID:29208932   PMID:29246442   PMID:29335648   PMID:29440508   PMID:29462197   PMID:29615703   PMID:29727681   PMID:29858571  
PMID:29946151   PMID:29988124   PMID:30008323   PMID:30022164   PMID:30174304   PMID:30256907   PMID:30366930   PMID:30373854   PMID:30392957   PMID:30413481   PMID:30423296   PMID:30425120  
PMID:30576655   PMID:30581152   PMID:30677043   PMID:30840882   PMID:30898894   PMID:30917317   PMID:30930146   PMID:30968547   PMID:30982661   PMID:31017901   PMID:31036156   PMID:31092925  
PMID:31243087   PMID:31285612   PMID:31316099   PMID:31399573   PMID:31412026   PMID:31418859   PMID:31433983   PMID:31447097   PMID:31481626   PMID:31552487   PMID:31562306   PMID:31566583  
PMID:31591568   PMID:31811821   PMID:31851932   PMID:31950264   PMID:31987884   PMID:32193336   PMID:32255245   PMID:32312982   PMID:32366944   PMID:32398640   PMID:32467237   PMID:32467240  
PMID:32595833   PMID:32601470   PMID:32716519   PMID:32730753   PMID:32790650   PMID:32839611   PMID:32891189   PMID:32960816   PMID:33369874   PMID:33475195   PMID:33608392   PMID:33732245  
PMID:33786850   PMID:33859647   PMID:33882303   PMID:33952457   PMID:34254201   PMID:34465025   PMID:34518235   PMID:34582788   PMID:34795669   PMID:34797691   PMID:35008683   PMID:35042581  
PMID:35075189   PMID:35077450   PMID:35099391   PMID:35273595   PMID:35479410   PMID:35578835   PMID:35614226   PMID:35941116   PMID:35941210   PMID:36136514   PMID:36398878   PMID:36409920  
PMID:36525973   PMID:36975725   PMID:37067332   PMID:37318881   PMID:37399024   PMID:37463205   PMID:37541395   PMID:37559721   PMID:37682531   PMID:37868985   PMID:37876819   PMID:37985759  


Genomics

Comparative Map Data
Foxn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391178,248,403 - 78,277,597 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,248,403 - 78,277,384 (-)EnsemblGRCm39 Ensembl
GRCm381178,357,577 - 78,386,783 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,357,577 - 78,386,558 (-)EnsemblGRCm38mm10GRCm38
MGSCv371178,171,790 - 78,200,060 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361178,174,483 - 78,202,753 (-)NCBIMGSCv36mm8
Celera1187,990,370 - 88,018,640 (-)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
FOXN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381728,506,348 - 28,538,900 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1728,506,243 - 28,538,900 (+)EnsemblGRCh38hg38GRCh38
GRCh371726,833,366 - 26,865,918 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361723,875,086 - 23,889,302 (+)NCBINCBI36Build 36hg18NCBI36
Build 341723,875,085 - 23,889,302NCBI
Celera1723,709,983 - 23,724,203 (+)NCBICelera
Cytogenetic Map17q11.2NCBI
HuRef1723,059,775 - 23,073,995 (+)NCBIHuRef
CHM1_11726,912,657 - 26,926,877 (+)NCBICHM1_1
T2T-CHM13v2.01729,449,365 - 29,481,520 (+)NCBIT2T-CHM13v2.0
Foxn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81063,749,461 - 63,778,468 (-)NCBIGRCr8
mRatBN7.21063,251,400 - 63,273,710 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1063,251,400 - 63,273,710 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1067,883,721 - 67,906,099 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01067,389,050 - 67,411,428 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01062,860,147 - 62,882,662 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01065,621,142 - 65,634,666 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1065,621,257 - 65,634,666 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01066,004,940 - 66,030,134 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41064,243,323 - 64,256,847 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1062,229,663 - 62,243,188 (-)NCBICelera
Cytogenetic Map10q25NCBI
Foxn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554814,611,087 - 4,627,113 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554814,611,246 - 4,640,606 (-)NCBIChiLan1.0ChiLan1.0
FOXN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21935,921,399 - 35,954,659 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11737,801,555 - 37,834,927 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01728,237,150 - 28,272,010 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11728,740,775 - 28,773,592 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1728,740,775 - 28,773,592 (-)Ensemblpanpan1.1panPan2
FOXN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1942,734,228 - 42,749,856 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl942,735,656 - 42,748,632 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha941,878,088 - 41,906,518 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0943,540,303 - 43,568,825 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl943,540,213 - 43,567,599 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1942,323,418 - 42,351,882 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0942,615,833 - 42,644,325 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0942,693,335 - 42,721,782 (+)NCBIUU_Cfam_GSD_1.0
Foxn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560241,839,546 - 41,868,057 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365384,731,958 - 4,744,796 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365384,717,509 - 4,745,504 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FOXN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1244,765,258 - 44,795,260 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11244,764,427 - 44,796,138 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21246,757,094 - 46,780,509 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FOXN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11622,291,597 - 22,306,977 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1622,292,330 - 22,305,968 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660757,819,856 - 7,835,084 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Foxn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247861,114,305 - 1,127,683 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247861,114,305 - 1,127,787 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Foxn1
667 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:394
Count of miRNA genes:317
Interacting mature miRNAs:343
Transcripts:ENSMUST00000108294
Prediction methods:Miranda, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170691198104691366Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172019649106019734Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
1301078Alcp2_malcohol preference locus 2 (mouse)Not determined117220979684731462Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172726125106726289Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170691198104691366Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177437183111437322Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116331940781830473Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1302124Eae7_msusceptibility to experimental allergic encephalomyelitis 7 (mouse)Not determined117757387399377820Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170691198104691366Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170691198104691366Mouse
4141365Ltxs3_mlethal factor toxin susceptibility 3 (mouse)Not determined117757387380746358Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116707819179813912Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172818615106818733Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172818615106818733Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177770978111771099Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177063779111063918Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177437183111437322Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
12903994Opfaq3_mopen field activity QTL 3 (mouse)117373754182069425Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse

Markers in Region
BB241108  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,358,086 - 78,358,222UniSTSGRCm38
MGSCv371178,171,588 - 78,171,724UniSTSGRCm37
Celera1187,990,168 - 87,990,304UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.0UniSTS
Whitehead/MRC_RH111001.01UniSTS
X81593  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,358,403 - 78,358,564UniSTSGRCm38
MGSCv371178,171,905 - 78,172,066UniSTSGRCm37
Celera1187,990,485 - 87,990,646UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.0UniSTS
Whitehead/MRC_RH11999.1UniSTS
Whitehead_YAC11 UniSTS
Foxn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,358,293 - 78,358,552UniSTSGRCm38
MGSCv371178,184,558 - 78,184,725UniSTSGRCm37
MGSCv371178,184,658 - 78,184,900UniSTSGRCm37
Celera1187,990,375 - 87,990,634UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.0UniSTS
cM Map1145.0UniSTS
D11Seg20  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,357,760 - 78,357,929UniSTSGRCm38
MGSCv371178,171,262 - 78,171,431UniSTSGRCm37
Celera1187,989,842 - 87,990,011UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.0UniSTS
D11Seg19  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,361,473 - 78,361,608UniSTSGRCm38
MGSCv371178,174,975 - 78,175,110UniSTSGRCm37
Celera1187,993,555 - 87,993,690UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.0UniSTS
D11Seg23  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,384,240 - 78,384,551UniSTSGRCm38
MGSCv371178,197,742 - 78,198,053UniSTSGRCm37
Celera1188,016,322 - 88,016,633UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.02UniSTS
Foxn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,371,056 - 78,371,223UniSTSGRCm38
MGSCv371178,184,558 - 78,184,725UniSTSGRCm37
Celera1188,003,138 - 88,003,305UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.0UniSTS
Foxn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,371,156 - 78,371,398UniSTSGRCm38
MGSCv371178,184,658 - 78,184,900UniSTSGRCm37
Celera1188,003,238 - 88,003,480UniSTS
Cytogenetic Map11B5UniSTS
X81593  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,358,534 - 78,358,663UniSTSGRCm38
MGSCv371178,172,036 - 78,172,165UniSTSGRCm37
Celera1187,990,616 - 87,990,745UniSTS
Cytogenetic Map11B5UniSTS
Whitehead/MRC_RH11999.1UniSTS
Foxn1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11B5UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001277290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_008238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006532264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006532265 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006532266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006532267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006532268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314285 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314286 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314287 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314288 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314289 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314291 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017314292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AI429806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL591131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC108980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC108981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX521706 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CJ056441 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  W97983 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X81593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y12488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y17107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSMUST00000108294   ⟹   ENSMUSP00000103929
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1178,248,403 - 78,277,384 (-)Ensembl
GRCm38.p6 Ensembl1178,357,577 - 78,386,558 (-)Ensembl
RefSeq Acc Id: NM_001277290   ⟹   NP_001264219
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,434 (-)NCBI
GRCm381178,357,577 - 78,386,608 (-)NCBI
Celera1187,989,659 - 88,018,690 (-)NCBI
Sequence:
RefSeq Acc Id: NM_008238   ⟹   NP_032264
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,434 (-)NCBI
GRCm381178,357,577 - 78,386,608 (-)NCBI
MGSCv371178,171,790 - 78,200,060 (-)RGD
Celera1187,989,659 - 88,018,690 (-)NCBI
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006532264   ⟹   XP_006532327
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,213 (-)NCBI
GRCm381178,357,577 - 78,386,388 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006532265   ⟹   XP_006532328
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,270,151 (-)NCBI
GRCm381178,357,577 - 78,379,325 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006532266   ⟹   XP_006532329
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,597 (-)NCBI
GRCm381178,357,577 - 78,386,783 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006532267   ⟹   XP_006532330
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,242 (-)NCBI
GRCm381178,357,577 - 78,386,416 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006532268   ⟹   XP_006532331
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,212 (-)NCBI
GRCm381178,357,577 - 78,386,387 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314283   ⟹   XP_017169772
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,213 (-)NCBI
GRCm381178,357,577 - 78,386,388 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314284   ⟹   XP_017169773
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,214 (-)NCBI
GRCm381178,357,577 - 78,386,389 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314285   ⟹   XP_017169774
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,242 (-)NCBI
GRCm381178,357,577 - 78,386,416 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314286   ⟹   XP_017169775
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,269,885 (-)NCBI
GRCm381178,357,577 - 78,379,059 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314287   ⟹   XP_017169776
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,263,612 (-)NCBI
GRCm381178,357,577 - 78,372,786 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314288   ⟹   XP_017169777
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,250 (-)NCBI
GRCm381178,357,577 - 78,386,424 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314289   ⟹   XP_017169778
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,596 (-)NCBI
GRCm381178,357,577 - 78,386,783 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314290   ⟹   XP_017169779
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,277,242 (-)NCBI
GRCm381178,357,577 - 78,386,416 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314291   ⟹   XP_017169780
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,269,840 (-)NCBI
GRCm381178,357,577 - 78,379,015 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017314292   ⟹   XP_017169781
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,248,403 - 78,269,843 (-)NCBI
GRCm381178,357,577 - 78,379,018 (-)NCBI
Sequence:
RefSeq Acc Id: NP_032264   ⟸   NM_008238
- Peptide Label: isoform 1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001264219   ⟸   NM_001277290
- Peptide Label: isoform 2
- UniProtKB: Q32MU3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006532329   ⟸   XM_006532266
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006532331   ⟸   XM_006532268
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006532327   ⟸   XM_006532264
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006532330   ⟸   XM_006532267
- Peptide Label: isoform X2
- UniProtKB: Q32MU3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006532328   ⟸   XM_006532265
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017169778   ⟸   XM_017314289
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169777   ⟸   XM_017314288
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169779   ⟸   XM_017314290
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169774   ⟸   XM_017314285
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169773   ⟸   XM_017314284
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017169772   ⟸   XM_017314283
- Peptide Label: isoform X2
- UniProtKB: Q32MU3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169775   ⟸   XM_017314286
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169781   ⟸   XM_017314292
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169780   ⟸   XM_017314291
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169776   ⟸   XM_017314287
- Peptide Label: isoform X1
- UniProtKB: Q61575 (UniProtKB/Swiss-Prot),   Q5SYK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000103929   ⟸   ENSMUST00000108294
Protein Domains
Fork-head

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q61575-F1-model_v2 AlphaFold Q61575 1-648 view protein structure

Promoters
RGD ID:8675716
Promoter ID:EPDNEW_M15889
Type:multiple initiation site
Name:Foxn1_2
Description:Mus musculus forkhead box N1 , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15890  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381178,386,407 - 78,386,467EPDNEW
RGD ID:8675718
Promoter ID:EPDNEW_M15890
Type:multiple initiation site
Name:Foxn1_1
Description:Mus musculus forkhead box N1 , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M15889  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381178,386,588 - 78,386,648EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:102949 AgrOrtholog
Ensembl Genes ENSMUSG00000002057 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000108294 ENTREZGENE
  ENSMUST00000108294.2 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro FH_FOXN1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fork_head_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TF_fork_head_CS_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:15218 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:102949 ENTREZGENE
NCBI Gene 15218 ENTREZGENE
PANTHER FORKHEAD BOX PROTEIN N1 UniProtKB/Swiss-Prot
  FORKHEAD BOX PROTEIN N1 UniProtKB/Swiss-Prot
  FORKHEAD BOX PROTEIN N1 UniProtKB/TrEMBL
  FORKHEAD BOX PROTEIN N1 UniProtKB/TrEMBL
Pfam Forkhead UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Foxn1 PhenoGen
PRINTS FORKHEAD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE FORK_HEAD_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FORK_HEAD_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00339 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt FOXN1_MOUSE UniProtKB/Swiss-Prot
  Q32MU3 ENTREZGENE, UniProtKB/TrEMBL
  Q5SYK1 ENTREZGENE, UniProtKB/TrEMBL
  Q61575 ENTREZGENE