Foxn3 (forkhead box N3) - Rat Genome Database

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Gene: Foxn3 (forkhead box N3) Rattus norvegicus
Analyze
Symbol: Foxn3
Name: forkhead box N3
RGD ID: 1305711
Description: Predicted to have DNA-binding transcription factor activity; cis-regulatory region sequence-specific DNA binding activity; and protein C-terminus binding activity. Predicted to be involved in craniofacial suture morphogenesis; mitotic G2 DNA damage checkpoint; and negative regulation of transcription, DNA-templated. Predicted to localize to nucleus. Orthologous to human FOXN3 (forkhead box N3); INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: checkpoint suppressor 1; Ches1; forkhead box protein N3; LOC314374
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26118,462,018 - 118,842,442 (-)NCBI
Rnor_6.0 Ensembl6123,187,726 - 123,577,695 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.06123,183,720 - 123,577,719 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06132,412,688 - 132,806,377 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46123,385,156 - 123,762,322 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16123,387,656 - 123,597,077 (-)NCBI
Celera6116,022,168 - 116,383,731 (-)NCBICelera
Cytogenetic Map6q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-methylcholanthrene  (EXP)
4-vinylcyclohexene dioxide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
carbon nanotube  (ISO)
chlorpyrifos  (EXP)
copper(II) sulfate  (ISO)
CU-O LINKAGE  (ISO)
cyclosporin A  (ISO)
dibutyl phthalate  (EXP)
dieldrin  (EXP)
dioxygen  (ISO)
diuron  (EXP)
doxorubicin  (ISO)
ethanol  (ISO)
flutamide  (EXP)
glafenine  (EXP)
leflunomide  (ISO)
methapyrilene  (ISO)
methotrexate  (ISO)
methoxychlor  (ISO)
mifepristone  (ISO)
nefazodone  (EXP)
nimesulide  (EXP)
nitrofen  (EXP)
oxaliplatin  (EXP)
paracetamol  (ISO)
phenobarbital  (ISO)
potassium dichromate  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (EXP,ISO)
topotecan  (EXP)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IBA)

Molecular Function

References

Additional References at PubMed
PMID:9154802   PMID:12477932   PMID:16102918   PMID:16951149   PMID:20691664   PMID:27292639  


Genomics

Comparative Map Data
Foxn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26118,462,018 - 118,842,442 (-)NCBI
Rnor_6.0 Ensembl6123,187,726 - 123,577,695 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.06123,183,720 - 123,577,719 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06132,412,688 - 132,806,377 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46123,385,156 - 123,762,322 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16123,387,656 - 123,597,077 (-)NCBI
Celera6116,022,168 - 116,383,731 (-)NCBICelera
Cytogenetic Map6q32NCBI
FOXN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1489,124,871 - 89,619,149 (-)EnsemblGRCh38hg38GRCh38
GRCh381489,156,177 - 89,619,165 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371489,622,521 - 90,085,509 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361488,692,269 - 89,155,247 (-)NCBINCBI36hg18NCBI36
Build 341488,692,277 - 88,953,127NCBI
Celera1469,670,626 - 70,132,768 (-)NCBI
Cytogenetic Map14q31.3-q32.11NCBI
HuRef1469,797,362 - 70,258,776 (-)NCBIHuRef
CHM1_11489,560,279 - 90,023,548 (-)NCBICHM1_1
Foxn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391299,156,340 - 99,529,926 (-)NCBIGRCm39mm39
GRCm39 Ensembl1299,156,337 - 99,529,841 (-)Ensembl
GRCm381299,190,081 - 99,563,667 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1299,190,078 - 99,563,582 (-)EnsemblGRCm38mm10GRCm38
MGSCv3712100,433,304 - 100,688,284 (-)NCBIGRCm37mm9NCBIm37
MGSCv361299,596,144 - 99,851,124 (-)NCBImm8
Celera12100,408,887 - 100,667,857 (-)NCBICelera
Cytogenetic Map12ENCBI
Foxn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543811,720,570 - 12,126,185 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543811,720,563 - 12,126,185 (-)NCBIChiLan1.0ChiLan1.0
FOXN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11489,134,673 - 89,468,817 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1489,140,892 - 89,387,807 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01469,778,191 - 70,238,813 (-)NCBIMhudiblu_PPA_v0panPan3
FOXN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1860,324,808 - 60,612,959 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3412,398,370 - 12,399,773 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha859,906,266 - 60,299,259 (-)NCBI
ROS_Cfam_1.0860,603,344 - 60,990,403 (-)NCBI
UMICH_Zoey_3.1860,279,420 - 60,672,434 (-)NCBI
UNSW_CanFamBas_1.0860,327,990 - 60,721,085 (-)NCBI
UU_Cfam_GSD_1.0860,655,678 - 61,049,079 (-)NCBI
Foxn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864015,233,255 - 15,508,229 (+)NCBI
SpeTri2.0NW_00493648816,560,732 - 16,828,972 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FOXN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7111,039,633 - 111,451,893 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17111,036,492 - 111,454,106 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27117,699,681 - 117,907,020 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.27117,530,994 - 117,562,667 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap7qNCBI
FOXN3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12466,832,760 - 67,103,637 (-)NCBI
Vero_WHO_p1.0NW_02366605354,173,484 - 54,427,857 (-)NCBI
Foxn3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473412,748,001 - 13,154,992 (+)NCBI

Position Markers
D6Got202  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26118,635,166 - 118,635,448 (+)MAPPER
Rnor_6.06123,369,129 - 123,369,410NCBIRnor6.0
Rnor_5.06132,597,878 - 132,598,159UniSTSRnor5.0
RGSC_v3.46123,553,823 - 123,554,105RGDRGSC3.4
RGSC_v3.46123,553,824 - 123,554,105UniSTSRGSC3.4
RGSC_v3.16123,557,571 - 123,557,852RGD
Celera6116,189,209 - 116,189,490UniSTS
RH 3.4 Map6866.7UniSTS
RH 3.4 Map6866.7RGD
RH 2.0 Map61023.9RGD
Cytogenetic Map6q32UniSTS
D6Got170  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26118,791,062 - 118,791,192 (+)MAPPER
Rnor_6.06123,524,913 - 123,525,042NCBIRnor6.0
Rnor_5.06132,753,580 - 132,753,709UniSTSRnor5.0
RGSC_v3.46123,709,539 - 123,709,669RGDRGSC3.4
RGSC_v3.46123,709,540 - 123,709,669UniSTSRGSC3.4
RGSC_v3.16123,713,287 - 123,713,416RGD
Celera6116,332,467 - 116,332,596UniSTS
RH 3.4 Map6874.8UniSTS
RH 3.4 Map6874.8RGD
RH 2.0 Map61033.0RGD
Cytogenetic Map6q32UniSTS
D6Got169  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26118,638,680 - 118,638,868 (+)MAPPER
Rnor_6.06123,372,643 - 123,372,830NCBIRnor6.0
Rnor_5.06132,601,392 - 132,601,579UniSTSRnor5.0
RGSC_v3.46123,557,337 - 123,557,525RGDRGSC3.4
RGSC_v3.46123,557,338 - 123,557,525UniSTSRGSC3.4
RGSC_v3.16123,561,084 - 123,561,272RGD
Celera6116,192,723 - 116,192,900UniSTS
Cytogenetic Map6q32UniSTS
BE105434  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26118,636,569 - 118,636,728 (+)MAPPER
Rnor_6.06123,370,532 - 123,370,690NCBIRnor6.0
Rnor_5.06132,599,281 - 132,599,439UniSTSRnor5.0
RGSC_v3.46123,555,227 - 123,555,385UniSTSRGSC3.4
Celera6116,190,612 - 116,190,770UniSTS
RH 3.4 Map6866.6UniSTS
Cytogenetic Map6q32UniSTS
BF403590  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26118,624,212 - 118,624,460 (+)MAPPER
Rnor_6.06123,358,264 - 123,358,511NCBIRnor6.0
Rnor_5.06132,587,083 - 132,587,330UniSTSRnor5.0
RGSC_v3.46123,542,688 - 123,542,935UniSTSRGSC3.4
Celera6116,178,548 - 116,178,795UniSTS
RH 3.4 Map6870.99UniSTS
Cytogenetic Map6q32UniSTS
GDB:1317640  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26118,651,692 - 118,652,609 (+)MAPPER
Rnor_6.06123,385,655 - 123,386,571NCBIRnor6.0
Rnor_5.06132,614,404 - 132,615,320UniSTSRnor5.0
RGSC_v3.46123,570,350 - 123,571,266UniSTSRGSC3.4
Celera6116,205,725 - 116,206,641UniSTS
Cytogenetic Map6q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)675623277136143011Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)675623277136426962Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)675623393136142742Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)675623393136142742Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)688507712133507712Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)688996335139410483Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)689631358134631358Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)689631358134631358Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)691703409136703409Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)692879510137879510Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)697949772133849286Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)699273921144273921Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)699273921144792678Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)6101207574147991367Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6104363890147991367Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6104381930138066274Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6108154445133849286Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6111134524138065254Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6117355600147991367Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6121224054135658578Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:170
Count of miRNA genes:135
Interacting mature miRNAs:147
Transcripts:ENSRNOT00000006604
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.


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 2 37 35 25 19 25 8 11 74 24 34 11 8
Low 1 6 22 16 16 11 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240431 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764801 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112342 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112343 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112344 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC087666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000006604   ⟹   ENSRNOP00000006604
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6123,187,726 - 123,577,695 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000083665   ⟹   ENSRNOP00000070786
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6123,189,601 - 123,405,246 (-)Ensembl
RefSeq Acc Id: NM_001108047   ⟹   NP_001101517
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,466,025 - 118,842,401 (-)NCBI
Rnor_6.06123,187,726 - 123,577,695 (-)NCBI
Rnor_5.06132,412,688 - 132,806,377 (-)NCBI
RGSC_v3.46123,385,156 - 123,762,322 (-)RGD
Celera6116,022,168 - 116,383,731 (-)RGD
Sequence:
RefSeq Acc Id: XM_006240429   ⟹   XP_006240491
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,675,085 (-)NCBI
Rnor_6.06123,183,720 - 123,408,632 (-)NCBI
Rnor_5.06132,412,688 - 132,806,377 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006240431   ⟹   XP_006240493
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,674,417 (-)NCBI
Rnor_6.06123,183,720 - 123,408,466 (-)NCBI
Rnor_5.06132,412,688 - 132,806,377 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764801   ⟹   XP_008763023
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,842,442 (-)NCBI
Rnor_6.06123,183,720 - 123,577,719 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764802   ⟹   XP_008763024
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,842,424 (-)NCBI
Rnor_6.06123,183,720 - 123,577,719 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594165   ⟹   XP_017449654
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,842,424 (-)NCBI
Rnor_6.06123,183,720 - 123,577,719 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594166   ⟹   XP_017449655
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,842,424 (-)NCBI
Rnor_6.06123,183,720 - 123,577,719 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039112336   ⟹   XP_038968264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,741,115 (-)NCBI
RefSeq Acc Id: XM_039112337   ⟹   XP_038968265
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,842,440 (-)NCBI
RefSeq Acc Id: XM_039112339   ⟹   XP_038968267
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,675,087 (-)NCBI
RefSeq Acc Id: XM_039112340   ⟹   XP_038968268
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,842,440 (-)NCBI
RefSeq Acc Id: XM_039112341   ⟹   XP_038968269
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,722,518 (-)NCBI
RefSeq Acc Id: XM_039112342   ⟹   XP_038968270
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,724,788 (-)NCBI
RefSeq Acc Id: XM_039112343   ⟹   XP_038968271
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,538,513 - 118,842,425 (-)NCBI
RefSeq Acc Id: XM_039112344   ⟹   XP_038968272
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,574,302 (-)NCBI
RefSeq Acc Id: XM_039112345   ⟹   XP_038968273
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26118,462,018 - 118,574,302 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101517   ⟸   NM_001108047
- UniProtKB: D3ZIJ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240491   ⟸   XM_006240429
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006240493   ⟸   XM_006240431
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008763023   ⟸   XM_008764801
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008763024   ⟸   XM_008764802
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JYT8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017449654   ⟸   XM_017594165
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017449655   ⟸   XM_017594166
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000006604   ⟸   ENSRNOT00000006604
RefSeq Acc Id: ENSRNOP00000070786   ⟸   ENSRNOT00000083665
RefSeq Acc Id: XP_038968265   ⟸   XM_039112337
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968268   ⟸   XM_039112340
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968264   ⟸   XM_039112336
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968270   ⟸   XM_039112342
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968269   ⟸   XM_039112341
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968267   ⟸   XM_039112339
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968273   ⟸   XM_039112345
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038968272   ⟸   XM_039112344
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038968271   ⟸   XM_039112343
- Peptide Label: isoform X3
Protein Domains
Fork-head

Transcriptome

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

Promoters
RGD ID:13694772
Promoter ID:EPDNEW_R5297
Type:multiple initiation site
Name:Foxn3_1
Description:forkhead box N3
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_6.06123,577,723 - 123,577,783EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305711 AgrOrtholog
Ensembl Genes ENSRNOG00000004709 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006604 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070786 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006604 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000083665 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
InterPro TF_fork_head UniProtKB/TrEMBL
  TF_fork_head_CS UniProtKB/TrEMBL
  TF_fork_head_CS_2 UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report rno:314374 UniProtKB/TrEMBL
NCBI Gene 314374 ENTREZGENE
Pfam Fork_head UniProtKB/TrEMBL
PhenoGen Foxn3 PhenoGen
PRINTS FORKHEAD UniProtKB/TrEMBL
PROSITE FORK_HEAD_1 UniProtKB/TrEMBL
  FORK_HEAD_2 UniProtKB/TrEMBL
  FORK_HEAD_3 UniProtKB/TrEMBL
SMART SM00339 UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
UniProt A0A0G2JYT8 ENTREZGENE, UniProtKB/TrEMBL
  D3ZIJ7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-03 Foxn3  forkhead box N3  Ches1_predicted  checkpoint suppressor 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Ches1_predicted  checkpoint suppressor 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED