Foxl1 (forkhead box L1) - Rat Genome Database

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Gene: Foxl1 (forkhead box L1) Mus musculus
Analyze
Symbol: Foxl1
Name: forkhead box L1
RGD ID: 1614457
MGI Page MGI
Description: Enables DNA-binding transcription factor activity. Acts upstream of or within several processes, including Peyer's patch morphogenesis; proteoglycan biosynthetic process; and visceral mesoderm-endoderm interaction involved in midgut development. Predicted to be located in nucleus. Is expressed in several structures, including alimentary system; central nervous system; heart; sensory organ; and urinary system. Human ortholog(s) of this gene implicated in otosclerosis 11. Orthologous to human FOXL1 (forkhead box L1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: fkh-6; Fkh6; forkhead box protein L1; forkhead homolog 6; forkhead-related protein FKHL11; FREA; FREAC7; transcription factor FKH-6
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398121,854,572 - 121,857,383 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8121,854,679 - 121,857,383 (+)EnsemblGRCm39 Ensembl
GRCm388121,127,685 - 121,130,644 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8121,127,940 - 121,130,644 (+)EnsemblGRCm38mm10GRCm38
MGSCv378123,651,585 - 123,654,544 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368124,013,939 - 124,014,949 (+)NCBIMGSCv36mm8
Celera8125,345,766 - 125,348,725 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map870.34NCBI
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,ISO)

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mouse MP Annotation Import Pipeline RGD automated import pipeline
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7689224   PMID:7957066   PMID:8674414   PMID:9203584   PMID:10349636   PMID:10615124   PMID:10926756   PMID:11042159   PMID:11076861   PMID:11162636   PMID:11217851   PMID:11555641  
PMID:12466851   PMID:12477932   PMID:12648490   PMID:12812790   PMID:14681479   PMID:15155178   PMID:15188402   PMID:15240114   PMID:15618518   PMID:15650110   PMID:16141072   PMID:16141073  
PMID:16230531   PMID:16469829   PMID:16618389   PMID:18287559   PMID:19049965   PMID:19105206   PMID:19841618   PMID:20059953   PMID:21873635   PMID:22988430   PMID:23226461   PMID:23369715  
PMID:24952961   PMID:25286440   PMID:27736991   PMID:28506991   PMID:28797033   PMID:28867346   PMID:28994389   PMID:30916783   PMID:33993983   PMID:34029742   PMID:34671097   PMID:37028407  
PMID:39001875  


Genomics

Comparative Map Data
Foxl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398121,854,572 - 121,857,383 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8121,854,679 - 121,857,383 (+)EnsemblGRCm39 Ensembl
GRCm388121,127,685 - 121,130,644 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8121,127,940 - 121,130,644 (+)EnsemblGRCm38mm10GRCm38
MGSCv378123,651,585 - 123,654,544 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368124,013,939 - 124,014,949 (+)NCBIMGSCv36mm8
Celera8125,345,766 - 125,348,725 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map870.34NCBI
FOXL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381686,578,549 - 86,583,478 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1686,576,368 - 86,583,478 (+)EnsemblGRCh38hg38GRCh38
GRCh371686,612,155 - 86,617,084 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361685,169,616 - 85,172,805 (+)NCBINCBI36Build 36hg18NCBI36
Build 341685,169,830 - 85,170,868NCBI
Celera1670,913,076 - 70,916,265 (+)NCBICelera
Cytogenetic Map16q24.1NCBI
HuRef1672,351,923 - 72,355,112 (+)NCBIHuRef
CHM1_11688,023,838 - 88,027,027 (+)NCBICHM1_1
T2T-CHM13v2.01692,646,860 - 92,651,789 (+)NCBIT2T-CHM13v2.0
Foxl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81966,105,953 - 66,109,366 (+)NCBIGRCr8
mRatBN7.21949,197,269 - 49,200,682 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1949,197,400 - 49,198,425 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1955,988,536 - 55,991,947 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01956,672,265 - 56,675,680 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01958,886,722 - 58,890,133 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01953,054,887 - 53,058,624 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1953,055,745 - 53,056,770 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,799,271 - 63,802,117 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1948,442,841 - 48,446,578 (+)NCBICelera
Cytogenetic Map19q12NCBI
FOXL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21896,334,664 - 96,337,804 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116102,251,825 - 102,256,791 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01667,249,157 - 67,252,278 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11686,580,646 - 86,583,593 (+)NCBIpanpan1.1PanPan1.1panPan2
FOXL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1566,281,543 - 66,287,357 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl566,283,528 - 66,284,598 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha566,293,564 - 66,299,385 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0566,503,066 - 66,508,886 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl566,505,053 - 66,506,123 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1566,525,951 - 66,531,764 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0566,361,136 - 66,366,956 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0566,774,376 - 66,780,196 (-)NCBIUU_Cfam_GSD_1.0
Foxl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934926,471,248 - 26,476,373 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366412,226,550 - 2,227,578 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366412,226,489 - 2,227,613 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FOXL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl62,542,675 - 2,543,691 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.162,540,748 - 2,544,978 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.262,748,329 - 2,750,723 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FOXL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1571,960,154 - 71,968,629 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl571,963,965 - 71,965,002 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660473,739,091 - 3,744,440 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Foxl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247462,642,691 - 2,643,731 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247462,640,486 - 2,645,326 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Foxl1
122 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:734
Count of miRNA genes:466
Interacting mature miRNAs:556
Transcripts:ENSMUST00000062634, ENSMUST00000181609
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357494Obsty2_mobesity 2 (mouse)Not determined896245241129745061Mouse
4141435Fbtq3_mfemoral bone trait QTL 3 (mouse)Not determined8100965309130127694Mouse
12904960Gmmq6_mgastrocnemius muscle mass QTL 6 (mouse)8111481497130127694Mouse
11252141Fdr2_mfat response to dietary restriction 2 (mouse)898390634130127694Mouse
1302105Im1_mImmunoregulatory 1 (mouse)Not determined899828531130127694Mouse
12880431Fgf23lq2_mFGF23 serum level QTL 2 (mouse)897626632130127694Mouse
1301080Sluc9_msusceptibility to lung cancer 9 (mouse)Not determined899828531130127694Mouse
10412274Leci1_mleukocyte endothelial cell interactions 1 (mouse)Not determined8110415083130127694Mouse
26884375Skwq2_mskull length QTL 2, 5 week (mouse)8120726739130027694Mouse
12904938Edlmmq7_mextensor digitorum longus muscle mass QTL 7 (mouse)8111481497130127694Mouse
10412273Fcd1_mfunctional capillary density 1 (mouse)Not determined8110415083130127694Mouse
27226796Scvln16_msacral vertebrae length 2, 16 week (mouse)889726628130027694Mouse
14746994Manh65_mmandible shape 65 (mouse)8106489629130127694Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)874126628126826739Mouse
4141546Mrdq3_mmodifier of retinal degeneration QTL 3 (mouse)Not determined114439420126055880Mouse
1301316Dntcs1_mdental caries susceptibility 1 (mouse)Not determined8103443553127781786Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871740461124622354Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71740461124622354Mouse
1301481Lith11_mlithogenic gene 11 (mouse)Not determined898563635130127694Mouse
11532692Sluc38a_msusceptibility to lung cancer 38a (mouse)8105033977130127694Mouse
11532691Sluc38_msusceptibility to lung cancer 38 (mouse)8105033977130127694Mouse

Markers in Region
X92498  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388121,129,125 - 121,129,324UniSTSGRCm38
MGSCv378123,653,025 - 123,653,224UniSTSGRCm37
Celera8125,347,206 - 125,347,405UniSTS
Cytogenetic Map8E1UniSTS
cM Map865.5UniSTS
Whitehead/MRC_RH81416.9UniSTS
Foxl1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388121,128,371 - 121,128,968UniSTSGRCm38
MGSCv378123,652,271 - 123,652,868UniSTSGRCm37
Celera8125,346,452 - 125,347,049UniSTS
Cytogenetic Map8E1UniSTS
cM Map865.5UniSTS
Foxd4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381924,901,109 - 24,901,895UniSTSGRCm38
MGSCv371924,975,599 - 24,976,385UniSTSGRCm37
Celera1925,676,309 - 25,677,094UniSTS
Cytogenetic Map8E1UniSTS
Cytogenetic Map19BUniSTS
cM Map865.5UniSTS
cM Map1917.5UniSTS
UniSTS:491230  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388121,127,940 - 121,129,029UniSTSGRCm38
MGSCv378123,651,840 - 123,652,929UniSTSGRCm37
Celera8125,346,021 - 125,347,110UniSTS
Cytogenetic Map8E1UniSTS
cM Map865.5UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000181609   ⟹   ENSMUSP00000137732
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8121,854,679 - 121,857,383 (+)Ensembl
GRCm38.p6 Ensembl8121,127,940 - 121,130,644 (+)Ensembl
RefSeq Acc Id: NM_008024   ⟹   NP_032050
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398121,854,572 - 121,857,383 (+)NCBI
GRCm388121,127,685 - 121,130,644 (+)ENTREZGENE
MGSCv378123,651,585 - 123,654,544 (+)RGD
Celera8125,345,766 - 125,348,725 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_032050   ⟸   NM_008024
- UniProtKB: B2RQ86 (UniProtKB/Swiss-Prot),   Q64731 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000137732   ⟸   ENSMUST00000181609

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q64731-F1-model_v2 AlphaFold Q64731 1-336 view protein structure

Promoters
RGD ID:8668481
Promoter ID:EPDNEW_M12271
Type:multiple initiation site
Name:Foxl1_1
Description:Mus musculus forkhead box L1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm388121,127,854 - 121,127,914EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1347469 AgrOrtholog
Ensembl Genes ENSMUSG00000097084 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000181609 ENTREZGENE
  ENSMUST00000181609.2 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot
InterPro FH_FOXL1 UniProtKB/Swiss-Prot
  Fork_head_dom UniProtKB/Swiss-Prot
  FOX_domain-containing UniProtKB/Swiss-Prot
  TF_fork_head_CS_1 UniProtKB/Swiss-Prot
  TF_fork_head_CS_2 UniProtKB/Swiss-Prot
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot
  WH_DNA-bd_sf UniProtKB/Swiss-Prot
KEGG Report mmu:14241 UniProtKB/Swiss-Prot
MGD MGI:1347469 ENTREZGENE
NCBI Gene 14241 ENTREZGENE
PANTHER FORKHEAD BOX PROTEIN UniProtKB/Swiss-Prot
  FORKHEAD BOX PROTEIN L1 UniProtKB/Swiss-Prot
Pfam Forkhead UniProtKB/Swiss-Prot
PhenoGen Foxl1 PhenoGen
PRINTS FORKHEAD UniProtKB/Swiss-Prot
PROSITE FORK_HEAD_1 UniProtKB/Swiss-Prot
  FORK_HEAD_2 UniProtKB/Swiss-Prot
  FORK_HEAD_3 UniProtKB/Swiss-Prot
SMART SM00339 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46785 UniProtKB/Swiss-Prot
UniProt B2RQ86 ENTREZGENE
  FOXL1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q8BQE0_MOUSE UniProtKB/TrEMBL
UniProt Secondary B2RQ86 UniProtKB/Swiss-Prot