FOXN4 (forkhead box N4) - Rat Genome Database

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Gene: FOXN4 (forkhead box N4) Homo sapiens
Analyze
Symbol: FOXN4
Name: forkhead box N4
RGD ID: 1314977
HGNC Page HGNC:21399
Description: Enables cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including heart development; neural retina development; and ventral spinal cord interneuron fate commitment. Predicted to act upstream of or within neuron fate commitment. Predicted to be part of chromatin. Predicted to be active in nucleus.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: FLJ35967; forkhead box protein N4; forkhead/winged helix transcription factor FOXN4
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812109,277,978 - 109,309,284 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12109,277,978 - 109,309,284 (-)EnsemblGRCh38hg38GRCh38
GRCh3712109,715,783 - 109,747,089 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612108,200,167 - 108,231,408 (-)NCBINCBI36Build 36hg18NCBI36
Celera12109,340,232 - 109,371,435 (-)NCBICelera
Cytogenetic Map12q24.11NCBI
HuRef12106,733,988 - 106,765,245 (-)NCBIHuRef
CHM1_112109,683,689 - 109,714,932 (-)NCBICHM1_1
T2T-CHM13v2.012109,252,960 - 109,284,245 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (ISA)
nucleus  (IBA,IEA,ISS)

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:14702039   PMID:15363391   PMID:15464224   PMID:15492871   PMID:16541075   PMID:19274049   PMID:21873635   PMID:22323600   PMID:26972000   PMID:27107012   PMID:28514442  
PMID:30177510   PMID:32296183   PMID:33961781   PMID:37605566  


Genomics

Comparative Map Data
FOXN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812109,277,978 - 109,309,284 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12109,277,978 - 109,309,284 (-)EnsemblGRCh38hg38GRCh38
GRCh3712109,715,783 - 109,747,089 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612108,200,167 - 108,231,408 (-)NCBINCBI36Build 36hg18NCBI36
Celera12109,340,232 - 109,371,435 (-)NCBICelera
Cytogenetic Map12q24.11NCBI
HuRef12106,733,988 - 106,765,245 (-)NCBIHuRef
CHM1_112109,683,689 - 109,714,932 (-)NCBICHM1_1
T2T-CHM13v2.012109,252,960 - 109,284,245 (-)NCBIT2T-CHM13v2.0
Foxn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395114,392,225 - 114,412,486 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5114,392,225 - 114,411,868 (-)EnsemblGRCm39 Ensembl
GRCm385114,254,164 - 114,274,418 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5114,254,164 - 114,273,807 (-)EnsemblGRCm38mm10GRCm38
MGSCv375114,704,173 - 114,723,770 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365114,515,163 - 114,534,760 (-)NCBIMGSCv36mm8
Celera5111,360,917 - 111,380,534 (-)NCBICelera
Cytogenetic Map5FNCBI
cM Map555.99NCBI
Foxn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81247,997,308 - 48,020,526 (+)NCBIGRCr8
mRatBN7.21242,336,706 - 42,359,932 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1242,340,323 - 42,359,921 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1243,508,097 - 43,528,395 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01244,121,690 - 44,141,988 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01243,182,198 - 43,202,496 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01248,101,012 - 48,121,281 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1248,101,673 - 48,121,270 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01249,887,275 - 49,907,303 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41243,372,586 - 43,381,544 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11243,232,259 - 43,243,592 (+)NCBI
Celera1243,948,971 - 43,969,762 (+)NCBICelera
Cytogenetic Map12q16NCBI
Foxn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554559,183,475 - 9,210,506 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554559,182,405 - 9,210,365 (+)NCBIChiLan1.0ChiLan1.0
FOXN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210117,344,767 - 117,376,042 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112117,341,165 - 117,372,442 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012106,855,308 - 106,886,508 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112110,250,547 - 110,280,876 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12110,251,449 - 110,280,025 (-)Ensemblpanpan1.1panPan2
FOXN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12617,730,638 - 17,757,173 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2617,728,878 - 17,755,602 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2618,044,121 - 18,070,855 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02618,073,809 - 18,100,778 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2618,072,097 - 18,099,008 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12618,253,264 - 18,279,991 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02618,064,663 - 18,091,420 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02618,083,721 - 18,110,688 (+)NCBIUU_Cfam_GSD_1.0
Foxn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118144,395,447 - 144,415,277 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367691,062,061 - 1,080,444 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367691,061,907 - 1,081,350 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FOXN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11441,589,128 - 41,614,488 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21444,135,477 - 44,145,796 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FOXN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111104,499,654 - 104,536,338 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl11104,499,633 - 104,534,275 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037140,572,888 - 140,604,649 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Foxn4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474711,123,615 - 11,149,571 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474711,122,463 - 11,149,505 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in FOXN4
30 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 12q23.3-24.13(chr12:105234677-112194686)x1 copy number loss See cases [RCV000050807] Chr12:105234677..112194686 [GRCh38]
Chr12:105628455..112632490 [GRCh37]
Chr12:104152585..111116873 [NCBI36]
Chr12:12q23.3-24.13		 pathogenic
NM_213596.2(FOXN4):c.925G>A (p.Asp309Asn) single nucleotide variant Malignant melanoma [RCV000069801] Chr12:109281776 [GRCh38]
Chr12:109719581 [GRCh37]
Chr12:108203964 [NCBI36]
Chr12:12q24.11		 not provided
NM_213596.2(FOXN4):c.714G>A (p.Lys238=) single nucleotide variant Malignant melanoma [RCV000069802] Chr12:109285491 [GRCh38]
Chr12:109723296 [GRCh37]
Chr12:108207679 [NCBI36]
Chr12:12q24.11		 not provided
GRCh38/hg38 12p13.33-q24.33(chr12:121271-133196807)x3 copy number gain See cases [RCV000139555] Chr12:121271..133196807 [GRCh38]
Chr12:282465..133773393 [GRCh37]
Chr12:100698..132283466 [NCBI36]
Chr12:12p13.33-q24.33		 pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:1-133851895)x3 copy number gain See cases [RCV000258805] Chr12:1..133851895 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic|likely pathogenic
GRCh37/hg19 12q23.3-24.11(chr12:107197584-109830564)x1 copy number loss not provided [RCV001270637] Chr12:107197584..109830564 [GRCh37]
Chr12:12q23.3-24.11		 uncertain significance
GRCh37/hg19 12q23.2-24.11(chr12:103044333-111639805)x1 copy number loss See cases [RCV000445832] Chr12:103044333..111639805 [GRCh37]
Chr12:12q23.2-24.11		 likely pathogenic
GRCh37/hg19 12q24.11(chr12:109190922-109989416)x3 copy number gain See cases [RCV000510377] Chr12:109190922..109989416 [GRCh37]
Chr12:12q24.11		 likely benign
GRCh37/hg19 12p13.33-q24.33(chr12:173787-133777902)x3 copy number gain See cases [RCV000510482] Chr12:173787..133777902 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:173787-133777902) copy number gain See cases [RCV000511643] Chr12:173787..133777902 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
NM_213596.3(FOXN4):c.983T>C (p.Leu328Pro) single nucleotide variant Inborn genetic diseases [RCV003256220] Chr12:109281718 [GRCh38]
Chr12:109719523 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.373G>A (p.Val125Met) single nucleotide variant Inborn genetic diseases [RCV003307222] Chr12:109287939 [GRCh38]
Chr12:109725744 [GRCh37]
Chr12:12q24.11		 uncertain significance
GRCh37/hg19 12p13.33-q24.33(chr12:191619-133777645)x3 copy number gain not provided [RCV000750246] Chr12:191619..133777645 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
GRCh37/hg19 12p13.33-q24.33(chr12:621220-133779118)x3 copy number gain not provided [RCV000750253] Chr12:621220..133779118 [GRCh37]
Chr12:12p13.33-q24.33		 pathogenic
GRCh37/hg19 12q24.11(chr12:109199902-110267493)x3 copy number gain not provided [RCV001006530] Chr12:109199902..110267493 [GRCh37]
Chr12:12q24.11		 uncertain significance
GRCh37/hg19 12q23.3-24.12(chr12:106498814-112252906)x1 copy number loss not provided [RCV001259630] Chr12:106498814..112252906 [GRCh37]
Chr12:12q23.3-24.12		 pathogenic
GRCh37/hg19 12q23.3-24.12(chr12:104230462-111984801)x1 copy number loss not provided [RCV001834231] Chr12:104230462..111984801 [GRCh37]
Chr12:12q23.3-24.12		 pathogenic
GRCh37/hg19 12q23.2-24.11(chr12:103044333-111639805) copy number loss not specified [RCV002053016] Chr12:103044333..111639805 [GRCh37]
Chr12:12q23.2-24.11		 likely pathogenic
NM_213596.3(FOXN4):c.278G>A (p.Ser93Asn) single nucleotide variant Inborn genetic diseases [RCV003278017] Chr12:109288135 [GRCh38]
Chr12:109725940 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1285G>A (p.Ala429Thr) single nucleotide variant Inborn genetic diseases [RCV002972744] Chr12:109281416 [GRCh38]
Chr12:109719221 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1163C>T (p.Pro388Leu) single nucleotide variant Inborn genetic diseases [RCV002969364] Chr12:109281538 [GRCh38]
Chr12:109719343 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1264G>A (p.Asp422Asn) single nucleotide variant Inborn genetic diseases [RCV002883211] Chr12:109281437 [GRCh38]
Chr12:109719242 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1391G>T (p.Gly464Val) single nucleotide variant Inborn genetic diseases [RCV002901783] Chr12:109279834 [GRCh38]
Chr12:109717639 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.83A>G (p.Tyr28Cys) single nucleotide variant Inborn genetic diseases [RCV002752547] Chr12:109308239 [GRCh38]
Chr12:109746044 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1111C>G (p.Leu371Val) single nucleotide variant Inborn genetic diseases [RCV002823173] Chr12:109281590 [GRCh38]
Chr12:109719395 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.491G>A (p.Gly164Asp) single nucleotide variant Inborn genetic diseases [RCV002784050] Chr12:109287502 [GRCh38]
Chr12:109725307 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1390G>A (p.Gly464Ser) single nucleotide variant Inborn genetic diseases [RCV002691521] Chr12:109279835 [GRCh38]
Chr12:109717640 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.946C>T (p.Arg316Cys) single nucleotide variant Inborn genetic diseases [RCV002951405] Chr12:109281755 [GRCh38]
Chr12:109719560 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.927C>G (p.Asp309Glu) single nucleotide variant Inborn genetic diseases [RCV002823174] Chr12:109281774 [GRCh38]
Chr12:109719579 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.769A>C (p.Lys257Gln) single nucleotide variant Inborn genetic diseases [RCV002692189] Chr12:109285436 [GRCh38]
Chr12:109723241 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.187G>T (p.Gly63Cys) single nucleotide variant Inborn genetic diseases [RCV002950405] Chr12:109290186 [GRCh38]
Chr12:109727991 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.871G>A (p.Ala291Thr) single nucleotide variant Inborn genetic diseases [RCV002713125] Chr12:109285334 [GRCh38]
Chr12:109723139 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1406C>T (p.Ser469Leu) single nucleotide variant Inborn genetic diseases [RCV003004000] Chr12:109279819 [GRCh38]
Chr12:109717624 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.787C>T (p.Arg263Cys) single nucleotide variant Inborn genetic diseases [RCV002697672] Chr12:109285418 [GRCh38]
Chr12:109723223 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1237G>A (p.Asp413Asn) single nucleotide variant Inborn genetic diseases [RCV002668552] Chr12:109281464 [GRCh38]
Chr12:109719269 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.170T>C (p.Leu57Pro) single nucleotide variant Inborn genetic diseases [RCV002748027] Chr12:109290203 [GRCh38]
Chr12:109728008 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.121G>A (p.Gly41Arg) single nucleotide variant Inborn genetic diseases [RCV002768718] Chr12:109290252 [GRCh38]
Chr12:109728057 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.695C>T (p.Thr232Met) single nucleotide variant Inborn genetic diseases [RCV002703123] Chr12:109285510 [GRCh38]
Chr12:109723315 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.976C>T (p.Pro326Ser) single nucleotide variant Inborn genetic diseases [RCV003204957] Chr12:109281725 [GRCh38]
Chr12:109719530 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.557T>G (p.Leu186Arg) single nucleotide variant Inborn genetic diseases [RCV003259736] Chr12:109287436 [GRCh38]
Chr12:109725241 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.1472C>T (p.Pro491Leu) single nucleotide variant Inborn genetic diseases [RCV003351015] Chr12:109279753 [GRCh38]
Chr12:109717558 [GRCh37]
Chr12:12q24.11		 uncertain significance
NM_213596.3(FOXN4):c.407C>T (p.Pro136Leu) single nucleotide variant Inborn genetic diseases [RCV003351278] Chr12:109287905 [GRCh38]
Chr12:109725710 [GRCh37]
Chr12:12q24.11		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2580
Count of miRNA genes:772
Interacting mature miRNAs:877
Transcripts:ENST00000299162, ENST00000355216, ENST00000423960, ENST00000468516
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.

Markers in Region
RH92201  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh3712109,715,846 - 109,715,992UniSTSGRCh37
Build 3612108,200,229 - 108,200,375RGDNCBI36
Celera12109,340,295 - 109,340,441RGD
Cytogenetic Map12q24.11UniSTS
HuRef12106,734,051 - 106,734,197UniSTS
GeneMap99-GB4 RH Map12427.28UniSTS
FOXN4_3704  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh3712109,716,864 - 109,717,720UniSTSGRCh37
Build 3612108,201,247 - 108,202,103RGDNCBI36
Celera12109,341,313 - 109,342,169RGD
HuRef12106,735,069 - 106,735,925UniSTS


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 sensory system adipose tissue appendage
High
Medium 1 13 13 10 13 4 22 3 370 46 1
Low 312 28 262 128 63 128 543 186 322 51 321 122 250 230
Below cutoff 1758 1584 1106 360 675 255 3161 1739 3093 210 603 971 107 911 2047

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_213596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011537922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011537923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017018818 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017018819 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_047428311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054371121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054371122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054371123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054371124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AA421288 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC012384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF425596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF425597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK093286 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK131519 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC113073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC146825 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KT584242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000299162   ⟹   ENSP00000299162
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl12109,277,978 - 109,309,284 (-)Ensembl
RefSeq Acc Id: ENST00000355216   ⟹   ENSP00000347354
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl12109,277,979 - 109,309,220 (-)Ensembl
RefSeq Acc Id: ENST00000423960   ⟹   ENSP00000408085
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl12109,279,761 - 109,290,252 (-)Ensembl
RefSeq Acc Id: ENST00000468516   ⟹   ENSP00000474754
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl12109,277,979 - 109,286,723 (-)Ensembl
RefSeq Acc Id: NM_213596   ⟹   NP_998761
RefSeq Status: VALIDATED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3812109,277,978 - 109,309,284 (-)NCBI
GRCh3712109,715,783 - 109,747,025 (-)RGD
Build 3612108,200,167 - 108,231,408 (-)NCBI Archive
Celera12109,340,232 - 109,371,435 (-)RGD
HuRef12106,733,988 - 106,765,245 (-)RGD
CHM1_112109,683,689 - 109,714,932 (-)NCBI
T2T-CHM13v2.012109,252,960 - 109,284,245 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011537922   ⟹   XP_011536224
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3812109,277,978 - 109,309,284 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011537923   ⟹   XP_011536225
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3812109,281,759 - 109,309,284 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017018818   ⟹   XP_016874307
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3812109,277,978 - 109,289,947 (-)NCBI
Sequence:
RefSeq Acc Id: XM_047428311   ⟹   XP_047284267
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3812109,277,978 - 109,289,947 (-)NCBI
RefSeq Acc Id: XM_054371121   ⟹   XP_054227096
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.012109,252,960 - 109,284,245 (-)NCBI
RefSeq Acc Id: XM_054371122   ⟹   XP_054227097
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.012109,252,960 - 109,264,928 (-)NCBI
RefSeq Acc Id: XM_054371123   ⟹   XP_054227098
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.012109,252,960 - 109,264,928 (-)NCBI
RefSeq Acc Id: XM_054371124   ⟹   XP_054227099
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.012109,256,741 - 109,284,245 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_998761   ⟸   NM_213596
- UniProtKB: Q6ZMR4 (UniProtKB/Swiss-Prot),   Q96NZ0 (UniProtKB/Swiss-Prot),   Q96NZ1 (UniProtKB/Swiss-Prot),   A6H901 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011536224   ⟸   XM_011537922
- Peptide Label: isoform X1
- UniProtKB: A6H901 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011536225   ⟸   XM_011537923
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_016874307   ⟸   XM_017018818
- Peptide Label: isoform X2
- UniProtKB: A6H901 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSP00000408085   ⟸   ENST00000423960
RefSeq Acc Id: ENSP00000474754   ⟸   ENST00000468516
RefSeq Acc Id: ENSP00000299162   ⟸   ENST00000299162
RefSeq Acc Id: ENSP00000347354   ⟸   ENST00000355216
RefSeq Acc Id: XP_047284267   ⟸   XM_047428311
- Peptide Label: isoform X3
- UniProtKB: A6H901 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054227096   ⟸   XM_054371121
- Peptide Label: isoform X1
- UniProtKB: A6H901 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054227098   ⟸   XM_054371123
- Peptide Label: isoform X3
- UniProtKB: A6H901 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054227097   ⟸   XM_054371122
- Peptide Label: isoform X2
- UniProtKB: A6H901 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054227099   ⟸   XM_054371124
- Peptide Label: isoform X4
Protein Domains
Fork-head

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q96NZ1-F1-model_v2 AlphaFold Q96NZ1 1-517 view protein structure

Promoters
RGD ID:6790058
Promoter ID:HG_KWN:16604
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:HeLa_S3,   NB4
Transcripts:ENST00000266856,   NM_213596,   UC001TOF.2
Position:
Human AssemblyChrPosition (strand)Source
Build 3612108,231,801 - 108,232,301 (-)MPROMDB
RGD ID:7225343
Promoter ID:EPDNEW_H18417
Type:initiation region
Name:FOXN4_1
Description:forkhead box N4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh3812109,309,242 - 109,309,302EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:21399 AgrOrtholog
COSMIC FOXN4 COSMIC
Ensembl Genes ENSG00000139445 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000299162 ENTREZGENE
  ENST00000299162.10 UniProtKB/Swiss-Prot
  ENST00000355216.5 UniProtKB/Swiss-Prot
  ENST00000423960.1 UniProtKB/TrEMBL
  ENST00000468516.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000139445 GTEx
HGNC ID HGNC:21399 ENTREZGENE
Human Proteome Map FOXN4 Human Proteome Map
InterPro Fork_head_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FOXN1_4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FOXN2-4-like 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 hsa:121643 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 121643 ENTREZGENE
OMIM 609429 OMIM
PANTHER FORK-HEAD DOMAIN-CONTAINING PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FORKHEAD BOX PROTEIN N1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FORKHEAD BOX PROTEIN N3-LIKE PROTEIN-RELATED UniProtKB/TrEMBL
  FORKHEAD BOX PROTEIN N4 UniProtKB/TrEMBL
Pfam Forkhead UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA134982965 PharmGKB
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 A0A0C4DG65_HUMAN UniProtKB/TrEMBL
  A4FUA3_HUMAN UniProtKB/TrEMBL
  A6H901 ENTREZGENE, UniProtKB/TrEMBL
  FOXN4_HUMAN UniProtKB/Swiss-Prot
  Q6ZMR4 ENTREZGENE
  Q96NZ0 ENTREZGENE
  Q96NZ1 ENTREZGENE
  S4R3U5_HUMAN UniProtKB/TrEMBL
UniProt Secondary Q6ZMR4 UniProtKB/Swiss-Prot
  Q96NZ0 UniProtKB/Swiss-Prot