FOXF1 (forkhead box F1) - Rat Genome Database

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Gene: FOXF1 (forkhead box F1) Sus scrofa
Analyze
Symbol: FOXF1
Name: forkhead box F1
RGD ID: 14244921
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription activator activity, RNA polymerase II-specific (inferred); DNA-binding transcription factor activity (inferred); INVOLVED IN animal organ morphogenesis (ortholog); cell-cell adhesion (ortholog); cellular response to cytokine stimulus (ortholog); PARTICIPATES IN forkhead class A signaling pathway; ASSOCIATED WITH congenital diaphragmatic hernia (ortholog); gastrointestinal stromal tumor (ortholog); genetic disease (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: forkhead box protein F1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl62,592,993 - 2,597,659 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.162,579,348 - 2,598,122 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.262,799,092 - 2,801,627 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ morphogenesis  (IBA,IEA,ISO)
blood vessel development  (IEA)
cardiac left ventricle morphogenesis  (IEA)
cell-cell adhesion  (IEA,ISO)
cellular response to cytokine stimulus  (IEA,ISO)
cellular response to organic cyclic compound  (IEA,ISO)
detection of wounding  (IEA,ISO)
determination of left/right symmetry  (IEA,ISO)
digestive tract development  (IEA)
ductus arteriosus closure  (IEA)
embryonic digestive tract development  (IEA,ISO)
embryonic digestive tract morphogenesis  (IEA)
embryonic ectodermal digestive tract morphogenesis  (IEA)
embryonic foregut morphogenesis  (IEA,ISO)
endocardial cushion development  (IEA)
epithelial cell differentiation involved in mammary gland alveolus development  (IEA,ISO)
epithelial tube branching involved in lung morphogenesis  (IEA,ISO)
establishment of epithelial cell apical/basal polarity  (IEA,ISO)
extracellular matrix organization  (IEA,ISO)
heart development  (IEA)
in utero embryonic development  (IEA,ISO)
lateral mesodermal cell differentiation  (IEA,ISO)
lung alveolus development  (IEA,ISO)
lung development  (IEA,ISO)
lung lobe morphogenesis  (IEA,ISO)
lung morphogenesis  (IEA,ISO)
lung vasculature development  (IEA)
mesenchyme migration  (IEA,ISO)
mesoderm development  (IEA,ISO)
mesodermal cell differentiation  (IEA,ISO)
midgut development  (IEA)
morphogenesis of a branching structure  (IEA)
negative regulation of inflammatory response  (IEA,ISO)
negative regulation of mast cell degranulation  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
pancreas development  (IEA)
positive regulation of cell migration  (IEA,ISO)
positive regulation of cell-substrate adhesion  (IEA,ISO)
positive regulation of DNA-templated transcription  (IEA)
positive regulation of mesenchymal cell proliferation  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
regulation of DNA-templated transcription  (IEA)
regulation of transcription by RNA polymerase II  (IBA)
respiratory tube development  (IEA)
right lung morphogenesis  (IEA,ISO)
smooth muscle cell differentiation  (IEA,ISO)
smoothened signaling pathway  (IEA,ISO)
somitogenesis  (IEA,ISO)
system development  (IEA)
trachea development  (IEA,ISO)
ureter development  (IEA)
vasculogenesis  (IEA,ISO)
venous blood vessel development  (IEA)

Cellular Component
nucleus  (IBA,IEA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
FOXF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl62,592,993 - 2,597,659 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.162,579,348 - 2,598,122 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.262,799,092 - 2,801,627 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FOXF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381686,510,527 - 86,515,422 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1686,510,527 - 86,515,422 (+)EnsemblGRCh38hg38GRCh38
GRCh371686,544,133 - 86,549,028 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361685,101,634 - 85,105,571 (+)NCBINCBI36Build 36hg18NCBI36
Build 341685,101,658 - 85,105,548NCBI
Celera1670,844,972 - 70,848,909 (+)NCBICelera
Cytogenetic Map16q24.1NCBI
HuRef1672,283,842 - 72,287,779 (+)NCBIHuRef
CHM1_11687,955,849 - 87,959,786 (+)NCBICHM1_1
T2T-CHM13v2.01692,578,744 - 92,583,639 (+)NCBIT2T-CHM13v2.0
Foxf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398121,811,100 - 121,814,883 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8121,811,125 - 121,814,883 (+)EnsemblGRCm39 Ensembl
GRCm388121,084,386 - 121,088,154 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8121,084,386 - 121,088,144 (+)EnsemblGRCm38mm10GRCm38
MGSCv378123,608,374 - 123,610,779 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368123,970,451 - 123,972,856 (+)NCBIMGSCv36mm8
Celera8125,302,426 - 125,304,831 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map870.31NCBI
Foxf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81966,062,635 - 66,066,427 (+)NCBIGRCr8
mRatBN7.21949,153,949 - 49,157,741 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1949,153,699 - 49,157,738 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1955,945,226 - 55,949,016 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01956,628,949 - 56,632,741 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01958,843,413 - 58,847,205 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01953,012,306 - 53,016,100 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1953,012,332 - 53,016,086 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,756,636 - 63,760,430 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1948,400,056 - 48,404,066 (+)NCBICelera
Cytogenetic Map19q12NCBI
Foxf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555411,317,114 - 1,346,590 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555411,341,715 - 1,345,397 (+)NCBIChiLan1.0ChiLan1.0
FOXF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21896,269,228 - 96,274,680 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116102,186,430 - 102,190,920 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01667,183,416 - 67,188,211 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11686,515,150 - 86,519,949 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1686,516,119 - 86,519,949 (+)Ensemblpanpan1.1panPan2
FOXF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1566,343,776 - 66,347,785 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl566,345,150 - 66,347,935 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha566,355,810 - 66,359,808 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0566,565,325 - 66,569,328 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl566,566,196 - 66,569,484 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1566,588,163 - 66,592,141 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0566,423,363 - 66,427,352 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0566,836,698 - 66,840,702 (-)NCBIUU_Cfam_GSD_1.0
Foxf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244082614 - 1,756 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049438834 - 1,756 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FOXF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1571,898,473 - 71,902,624 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl571,898,786 - 71,903,661 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660473,803,343 - 3,807,492 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Foxf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247462,599,106 - 2,603,336 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247462,599,211 - 2,603,031 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in FOXF1
503 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 9 2 5 1 2 1
Below cutoff 1 2 3 1 20 2 2

Sequence


RefSeq Acc Id: ENSSSCT00000040450   ⟹   ENSSSCP00000042203
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl62,592,993 - 2,597,336 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000045590   ⟹   ENSSSCP00000037013
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl62,592,993 - 2,597,659 (-)Ensembl
RefSeq Acc Id: XM_021093695   ⟹   XP_020949354
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.162,579,348 - 2,598,122 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093696   ⟹   XP_020949355
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.162,579,348 - 2,598,122 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093697   ⟹   XP_020949356
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.162,579,348 - 2,598,122 (-)NCBI
Sequence:
RefSeq Acc Id: XP_020949356   ⟸   XM_021093697
- Peptide Label: isoform X2
- UniProtKB: A0A4X1T7Q3 (UniProtKB/TrEMBL),   A0A286ZZE6 (UniProtKB/TrEMBL),   A0A8D1MST9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020949355   ⟸   XM_021093696
- Peptide Label: isoform X2
- UniProtKB: A0A4X1T7Q3 (UniProtKB/TrEMBL),   A0A286ZZE6 (UniProtKB/TrEMBL),   A0A8D1MST9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020949354   ⟸   XM_021093695
- Peptide Label: isoform X1
- UniProtKB: A0A287ADW4 (UniProtKB/TrEMBL),   A0A8D0NIA7 (UniProtKB/TrEMBL),   A0A8D1IXK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000042203   ⟸   ENSSSCT00000040450
RefSeq Acc Id: ENSSSCP00000037013   ⟸   ENSSSCT00000045590
Protein Domains
Fork-head


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000038460 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015036241 UniProtKB/TrEMBL
  ENSSSCG00025029174 UniProtKB/TrEMBL
  ENSSSCG00035024670 UniProtKB/TrEMBL
  ENSSSCG00045033306 UniProtKB/TrEMBL
  ENSSSCG00050047054 UniProtKB/TrEMBL
  ENSSSCG00070007086 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000045590 ENTREZGENE
  ENSSSCT00000045590.2 UniProtKB/TrEMBL
  ENSSSCT00015048022.1 UniProtKB/TrEMBL
  ENSSSCT00015048038.1 UniProtKB/TrEMBL
  ENSSSCT00025039596.1 UniProtKB/TrEMBL
  ENSSSCT00035032449.1 UniProtKB/TrEMBL
  ENSSSCT00035032457.1 UniProtKB/TrEMBL
  ENSSSCT00045056891.1 UniProtKB/TrEMBL
  ENSSSCT00045056924.1 UniProtKB/TrEMBL
  ENSSSCT00050064077.1 UniProtKB/TrEMBL
  ENSSSCT00070013604.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
InterPro Fork_head_dom UniProtKB/TrEMBL
  TF_fork_head_CS_1 UniProtKB/TrEMBL
  TF_fork_head_CS_2 UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene FOXF1 ENTREZGENE
PANTHER FORKHEAD BOX PROTEIN BINIOU UniProtKB/TrEMBL
  FORKHEAD BOX PROTEIN F1 UniProtKB/TrEMBL
Pfam Forkhead UniProtKB/TrEMBL
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 Formin homology 2 domain (FH2 domain) UniProtKB/TrEMBL
  SSF46785 UniProtKB/TrEMBL
UniProt A0A286ZZE6 ENTREZGENE, UniProtKB/TrEMBL
  A0A287ADW4 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1T7Q3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0NIA7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1IXK1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1MST9 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:88204 ENTREZGENE