FOXN4 (forkhead box N4) - Rat Genome Database

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Gene: FOXN4 (forkhead box N4) Chlorocebus sabaeus
Analyze
Symbol: FOXN4
Name: forkhead box N4
RGD ID: 18755702
Description: ENCODES a protein that exhibits chromatin binding (ortholog); cis-regulatory region sequence-specific DNA binding (ortholog); INVOLVED IN amacrine cell differentiation (ortholog); neuron fate commitment (ortholog); positive regulation of transcription by RNA polymerase II (ortholog); ASSOCIATED WITH genetic disease (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: forkhead box protein N4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
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
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
nucleus  (IEA)

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium
Low 2 12 2
Below cutoff 21 6 42

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000000792   ⟹   ENSCSAP00000015272
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl11104,499,633 - 104,534,275 (-)Ensembl
RefSeq Acc Id: XM_037996567   ⟹   XP_037852495
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666037140,572,888 - 140,604,649 (+)NCBI
Protein Sequences
Protein RefSeqs XP_037852495 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000015272.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000015272   ⟸   ENSCSAT00000000792
RefSeq Acc Id: XP_037852495   ⟸   XM_037996567
- UniProtKB: A0A0D9S333 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000002781 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000000792.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
InterPro Fork_head_dom UniProtKB/TrEMBL
  FOXN1_4 UniProtKB/TrEMBL
  TF_fork_head_CS_2 UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene FOXN4 ENTREZGENE
PANTHER FORK-HEAD DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  FORKHEAD BOX PROTEIN N1 UniProtKB/TrEMBL
Pfam Forkhead UniProtKB/TrEMBL
PRINTS FORKHEAD UniProtKB/TrEMBL
PROSITE FORK_HEAD_2 UniProtKB/TrEMBL
  FORK_HEAD_3 UniProtKB/TrEMBL
SMART SM00339 UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
UniProt A0A0D9S333 ENTREZGENE, UniProtKB/TrEMBL