Foxd1 (forkhead box D1) - Rat Genome Database

Name: Foxd1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Foxd1 (forkhead box D1) Mus musculus

Analyze

Symbol:

Foxd1

Name:

forkhead box D1

RGD ID:

1551715

MGI Page

MGI

Description:

Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including kidney development; luteinizing hormone secretion; and regulation of gene expression. Acts upstream of or within axon guidance; branching involved in ureteric bud morphogenesis; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Is expressed in several structures, including alimentary system; embryo mesenchyme; metanephros; nervous system; and sensory organ. Orthologous to human FOXD1 (forkhead box D1).

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

AI385632; BF-2; brain factor 2; forkhead box protein D1; FORKHEAD BOX PROTEIN D1 (FORKHEAD-RELATED PROTEIN FKHL8) (FORKHEAD-RELATED TRANSCRIPTION FACTOR 4) (FREAC-4); forkhead-related protein FKHL8; forkhead-related transcription factor 4; FREA; FREAC-4; FREAC4; HFH-BF-2; Hfh10; Hfhbf2; HNF-3/forkhead homolog, brain factor 2

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	FOXD1 (forkhead box D1)	HGNC	HGNC, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB
Rattus norvegicus (Norway rat):	Foxd1 (forkhead box D1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Foxd1 (forkhead box D1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	FOXD1 (forkhead box D1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	FOXD1 (forkhead box D1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	FOXD1 (forkhead box D1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	FOXD1 (forkhead box D1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Foxd1 (forkhead box D1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	FOXD1 (forkhead box D1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	foxd1 (forkhead box D1)	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid\|ZFIN)
Caenorhabditis elegans (roundworm):	unc-130	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	fd59A	Alliance	DIOPT (InParanoid\|OrthoFinder\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	foxd1	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCm39 - Mouse Genome Assembly GRCm39

Position:

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	98,490,753 - 98,493,213 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	98,490,750 - 98,495,813 (+)	Ensembl		GRCm39 Ensembl
GRCm38	13	98,354,245 - 98,356,705 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	98,354,242 - 98,359,305 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	99,124,200 - 99,126,660 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	99,454,412 - 99,456,849 (+)	NCBI		MGSCv36	mm8
Celera	13	102,010,574 - 102,012,702 (+)	NCBI		Celera
Cytogenetic Map	13	D1	NCBI
cM Map	13	51.96	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

hereditary breast ovarian cancer syndrome (ISO)

Neurodevelopmental Disorders (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane (ISO)

1,1-dichloroethene (EXP)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

4,4'-sulfonyldiphenol (EXP,ISO)

ammonium chloride (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (EXP)

cannabidiol (ISO)

carbamazepine (ISO)

choline (EXP)

cisplatin (ISO)

cobalt dichloride (ISO)

coumestrol (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

diallyl trisulfide (ISO)

diethylstilbestrol (ISO)

entinostat (ISO)

folic acid (EXP)

genistein (ISO)

gentamycin (ISO)

hydrazine (EXP)

isotretinoin (ISO)

L-methionine (EXP)

Licochalcone B (ISO)

N-nitrosodiethylamine (ISO)

nickel atom (ISO)

paracetamol (EXP,ISO)

phenethyl caffeate (ISO)

resveratrol (ISO)

rofecoxib (ISO)

silver atom (EXP)

silver(0) (EXP)

sodium arsenate (ISO)

temozolomide (ISO)

tert-butyl hydroperoxide (EXP,ISO)

topotecan (ISO)

trichloroethene (ISO)

urethane (ISO)

valproic acid (EXP,ISO)

zearalenone (ISO)

zinc atom (ISO)

zinc dichloride (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

anatomical structure morphogenesis (IBA)

axon guidance (IMP)

branching involved in ureteric bud morphogenesis (IDA)

canonical Wnt signaling pathway (IMP)

cell differentiation (IBA)

dichotomous subdivision of terminal units involved in ureteric bud branching (IMP)

kidney development (IMP)

luteinizing hormone secretion (IMP)

metanephric capsule development (IMP)

metanephric capsule specification (IMP)

metanephric nephron development (IMP)

negative regulation of DNA-templated transcription (IMP)

nephrogenic mesenchyme development (IMP)

pattern specification involved in metanephros development (IMP)

positive regulation of BMP signaling pathway (IMP)

positive regulation of gene expression (IMP)

positive regulation of kidney development (IMP)

positive regulation of transcription by RNA polymerase II (IDA)

regulation of DNA-templated transcription (IEA)

regulation of transcription by RNA polymerase II (IBA)

Cellular Component

nucleus (IEA)

Molecular Function

DNA binding (IDA,ISO)

DNA binding, bending (ISO)

DNA-binding transcription activator activity, RNA polymerase II-specific (IDA)

DNA-binding transcription factor activity (IEA)

DNA-binding transcription factor activity, RNA polymerase II-specific (IBA)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA,IDA)

sequence-specific DNA binding (IDA,ISO)

Phenotype Annotations Click to see Annotation Detail View

Mammalian Phenotype

abnormal adrenal gland morphology (IAGP)

abnormal forebrain morphology (IAGP)

abnormal kidney development (IAGP)

abnormal metanephric mesenchyme morphology (IAGP)

abnormal nephrogenic mesenchyme morphogenesis (IAGP)

abnormal nephrogenic zone morphology (IAGP)

abnormal nephron morphology (IAGP)

abnormal retina morphology (IAGP)

abnormal ureter morphology (IAGP)

aphagia (IAGP)

decreased renal glomerulus number (IAGP)

delayed kidney development (IAGP)

dilated kidney collecting duct (IAGP)

fused kidneys (IAGP)

hydronephrosis (IAGP)

impaired branching involved in ureteric bud morphogenesis (IAGP)

increased susceptibility to injury (IAGP)

meteorism (IAGP)

neonatal lethality, complete penetrance (IAGP)

pelvic kidney (IAGP)

pulmonary fibrosis (IAGP)

short ureter (IAGP)

small adrenal glands (IAGP)

small kidney (IAGP)

tachypnea (IAGP)

References

References - curated

#	Reference Title	Reference Citation
1.	Identification of nine tissue-specific transcription factors of the hepatocyte nuclear factor 3/forkhead DNA-binding-domain family.	Clevidence DE, etal., Proc Natl Acad Sci U S A 1993 May 1;90(9):3948-52.
2.	MGDs mouse GO annotations	MGD data from the GO Consortium
3.	MGD IEA	MGD IEA
4.	Mouse MP Annotation Import Pipeline	RGD automated import pipeline
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:7789972	PMID:7815060	PMID:7957066	PMID:8666231	PMID:9118797	PMID:9232602	PMID:9510020	PMID:9811586	PMID:9851982	PMID:9886035	PMID:10021334	PMID:10349636
PMID:10373304	PMID:10498272	PMID:10572052	PMID:11042159	PMID:11076861	PMID:11138002	PMID:11217851	PMID:11493536	PMID:11507767	PMID:11562352	PMID:11943768	PMID:12060755
PMID:12223410	PMID:12412011	PMID:12466851	PMID:12591246	PMID:12619136	PMID:12631064	PMID:13678594	PMID:14681479	PMID:15107405	PMID:15162516	PMID:15201220	PMID:15509772
PMID:15618518	PMID:15634693	PMID:16049112	PMID:16141072	PMID:16141073	PMID:16319116	PMID:16511601	PMID:16585573	PMID:16602821	PMID:16783635	PMID:16818446	PMID:16942767
PMID:17036046	PMID:17107998	PMID:17452023	PMID:17826763	PMID:18094027	PMID:18287559	PMID:18371453	PMID:18776146	PMID:18835385	PMID:19004857	PMID:19036983	PMID:19060336
PMID:19281780	PMID:19474326	PMID:19521555	PMID:19542358	PMID:19591821	PMID:19741018	PMID:19793891	PMID:19898483	PMID:20008127	PMID:20059953	PMID:20152829	PMID:20436479
PMID:20843830	PMID:21035938	PMID:21128305	PMID:21267068	PMID:21303848	PMID:21350013	PMID:21490208	PMID:21613322	PMID:21852398	PMID:21858105	PMID:21873635	PMID:21931791
PMID:22008794	PMID:22102609	PMID:22282599	PMID:22510988	PMID:22511595	PMID:23262027	PMID:23284914	PMID:23487309	PMID:23555292	PMID:23678105	PMID:23685333	PMID:23720040
PMID:23823180	PMID:23924232	PMID:23974041	PMID:24099863	PMID:24146773	PMID:24226518	PMID:24284212	PMID:24353058	PMID:24440154	PMID:24496101	PMID:24505489	PMID:24732380
PMID:25053437	PMID:25358792	PMID:25505333	PMID:25651362	PMID:25758227	PMID:25803581	PMID:26071365	PMID:26116176	PMID:26116661	PMID:26116666	PMID:26138478	PMID:26141512
PMID:26246508	PMID:26253404	PMID:26256211	PMID:26438731	PMID:26511275	PMID:26726812	PMID:26731474	PMID:26776520	PMID:26956838	PMID:27088801	PMID:27165825	PMID:27335372
PMID:27582005	PMID:27628903	PMID:27642633	PMID:27779900	PMID:27805902	PMID:27869651	PMID:27957530	PMID:28028137	PMID:28069742	PMID:28286175	PMID:28439006	PMID:28506991
PMID:28527294	PMID:28535371	PMID:28539333	PMID:28665931	PMID:28701517	PMID:28729440	PMID:28794157	PMID:28847002	PMID:29031500	PMID:29109083	PMID:29284139	PMID:29357412
PMID:29449449	PMID:29459093	PMID:29592525	PMID:29596840	PMID:29667914	PMID:29679559	PMID:29705331	PMID:29945868	PMID:30063881	PMID:30124871	PMID:30158529	PMID:30377232
PMID:30516471	PMID:30545632	PMID:30595537	PMID:30661985	PMID:30810761	PMID:30830875	PMID:30943054	PMID:30969804	PMID:31042081	PMID:31102349	PMID:31142573	PMID:31364375
PMID:31405951	PMID:31405952	PMID:31705443	PMID:31907354	PMID:32040930	PMID:32154933	PMID:32324134	PMID:32541007	PMID:32561725	PMID:32586976	PMID:32715478	PMID:32868762
PMID:33006313	PMID:33302058	PMID:33479483	PMID:33522480	PMID:33898467	PMID:34031962	PMID:34070742	PMID:34732708	PMID:34878095	PMID:35037469	PMID:35105870	PMID:35247391
PMID:35263586	PMID:35451473	PMID:35796804	PMID:35830813	PMID:35918150	PMID:36196625	PMID:36335435	PMID:36445780	PMID:36477539	PMID:36527791	PMID:36652050	PMID:36920028
PMID:36960826	PMID:37227110	PMID:37524711	PMID:37727504	PMID:37823339	PMID:38092733	PMID:38177914	PMID:38424240

Genomics

Comparative Map Data

Foxd1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	98,490,753 - 98,493,213 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	98,490,750 - 98,495,813 (+)	Ensembl		GRCm39 Ensembl
GRCm38	13	98,354,245 - 98,356,705 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	98,354,242 - 98,359,305 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	99,124,200 - 99,126,660 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	99,454,412 - 99,456,849 (+)	NCBI		MGSCv36	mm8
Celera	13	102,010,574 - 102,012,702 (+)	NCBI		Celera
Cytogenetic Map	13	D1	NCBI
cM Map	13	51.96	NCBI

FOXD1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	73,446,266 - 73,448,777 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	5	73,444,827 - 73,448,777 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	5	72,742,093 - 72,744,602 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	72,777,839 - 72,780,108 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	5	72,777,870 - 72,780,356	NCBI
Celera	5	68,637,378 - 68,639,649 (-)	NCBI		Celera
Cytogenetic Map	5	q13.2	NCBI
HuRef	5	67,947,569 - 67,949,821 (-)	NCBI		HuRef
CHM1_1	5	72,174,804 - 72,177,081 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	5	73,927,589 - 73,930,100 (-)	NCBI		T2T-CHM13v2.0

Foxd1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	31,436,802 - 31,439,222 (+)	NCBI		GRCr8
mRatBN7.2	2	29,702,558 - 29,704,978 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	29,702,558 - 29,704,978 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	2	36,759,829 - 36,762,247 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	34,854,175 - 34,856,593 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	29,672,088 - 29,674,506 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	28,460,068 - 28,462,488 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	28,460,068 - 28,462,488 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	47,560,939 - 47,563,359 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	28,944,067 - 28,945,665 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	2	28,864,816 - 28,865,119 (+)	NCBI
Celera	2	25,739,043 - 25,741,152 (+)	NCBI		Celera
Cytogenetic Map	2	q12	NCBI

Foxd1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955425	27,158,601 - 27,159,447 (+)	NCBI	ChiLan1.0	ChiLan1.0

FOXD1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	4	41,869,400 - 41,871,933 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	5	40,021,506 - 40,025,581 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	5	41,867,118 - 41,870,497 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

FOXD1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Dog10K_Boxer_Tasha	2	53,266,967 - 53,269,485 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	2	56,812,484 - 56,814,991 (-)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	2	53,873,429 - 53,875,972 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	54,641,541 - 54,644,071 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	55,532,914 - 55,535,465 (-)	NCBI		UU_Cfam_GSD_1.0

FOXD1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	82,607,848 - 82,609,248 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	82,607,113 - 82,612,005 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

FOXD1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	4	67,790,423 - 67,796,901 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666049	16,561,007 - 16,563,829 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Foxd1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624905	2,487,981 - 2,490,068 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Foxd1
107 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	201
Count of miRNA genes:	170
Interacting mature miRNAs:	181
Transcripts:	ENSMUST00000105098
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
4142147	Mvwf4_m	modifier of von Willebrand factor 4 (mouse)			Not determined			20477612	112898424	Mouse
4142314	Tailaq3_m	tail length adjusted QTL 3 (mouse)			Not determined			55720354	112431103	Mouse
4140959	W10q17_m	weight 10 weeks QTL 17 (mouse)			Not determined			55720354	112431103	Mouse
4141992	W6q16_m	weight 6 weeks QTL 16 (mouse)			Not determined			55720354	112431103	Mouse
4142241	Tailq3_m	tail length QTL 3 (mouse)			Not determined			55720354	112431103	Mouse
10402414	Sgp5_m	serum gp70 production 5 (mouse)			Not determined		13	56470456	105422186	Mouse
1301445	Listr2_m	listeriosis resistance 2 (mouse)			Not determined		13	66744601	100744746	Mouse
1301593	Heal8_m	wound healing/regeneration 8 (mouse)			Not determined		13	68053999	102054119	Mouse
14696726	Kidrq3_m	kidney weight, right QTL 3 (mouse)					13	68217066	102217066	Mouse
14747007	Mancz11_m	mandible centroid size 11 (mouse)					13	70111284	104111284	Mouse
4141266	Mol3_m	modifier of LPS-response 3 (mouse)			Not determined			76132600	112431103	Mouse
12880414	V125Dq10_m	vitamin D active form serum level QTL 10 (mouse)					13	78036508	112036508	Mouse
10043997	Bw40_m	body weight QTL 40 (mouse)			Not determined		14	79239045	113239162	Mouse
10045623	Heal18_m	wound healing regeneration 18 (mouse)			Not determined		13	79239045	113239162	Mouse
1558741	Ses10_m	salmonella enteritidis susceptibility 10 (mouse)			Not determined		13	82739968	116740106	Mouse
4142465	Pbwg17_m	postnatal body weight growth 17 (mouse)			Not determined		13	83876060	117876256	Mouse
14700691	Cisaq1_m	coxsackieviral infection serum ALT QTL 1 (mouse)					13	86148119	120461536	Mouse
4140995	Fbtq6_m	femoral bone trait QTL 6 (mouse)			Not determined		13	86341617	120341758	Mouse
4141728	Egaq4_m	early growth adjusted QTL 4 (mouse)			Not determined			87901985	112431103	Mouse
1300939	Hrtfm6_m	heart failure modifier 6 (mouse)			Not determined		13	91383692	120883175	Mouse
1300876	Tanidd2_m	tally ho associated non-insulin dependednt diabetes mellitus 2 (mouse)			Not determined		13	91965303	120883175	Mouse
1301142	Heal2_m	wound healing/regeneration 2 (mouse)			Not determined		13	93875267	120883175	Mouse
4142338	Skmw18_m	skeletal muscle weight 18 (mouse)			Not determined		13	94528399	120883175	Mouse
1558763	Gct9_m	granulosa cell tumorigenesis 9 (mouse)			Not determined		13	95036824	120883175	Mouse
1357468	Rplag_m	reduced platelet aggregation (mouse)			Not determined		13	95502130	120883175	Mouse

Markers in Region

Foxd1

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	13	98,355,711 - 98,356,568	UniSTS	GRCm38
MGSCv37	13	99,125,666 - 99,126,523	UniSTS	GRCm37
Celera	13	102,011,708 - 102,012,565	UniSTS
Cytogenetic Map	13	D1	UniSTS
cM Map	13	52.0	UniSTS

UniSTS:237087

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	13	98,356,194 - 98,356,351	UniSTS	GRCm38
MGSCv37	13	99,126,149 - 99,126,306	UniSTS	GRCm37
Celera	13	102,012,191 - 102,012,348	UniSTS
Cytogenetic Map	13	D1	UniSTS
cM Map	13	52.0	UniSTS

AI385632

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	13	98,356,120 - 98,356,258	UniSTS	GRCm38
MGSCv37	13	99,126,075 - 99,126,213	UniSTS	GRCm37
Celera	13	102,012,117 - 102,012,255	UniSTS
Cytogenetic Map	13	D1	UniSTS
cM Map	13	52.0	UniSTS
Whitehead/MRC_RH	13	850.54	UniSTS

PMC316354P2

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	13	98,355,012 - 98,355,281	UniSTS	GRCm38
GRCm38	4	114,925,550 - 114,925,819	UniSTS	GRCm38
MGSCv37	4	114,598,155 - 114,598,424	UniSTS	GRCm37
MGSCv37	13	99,124,967 - 99,125,236	UniSTS	GRCm37
Celera	4	113,673,324 - 113,673,593	UniSTS
Cytogenetic Map	4	C7	UniSTS
Cytogenetic Map	13	D1	UniSTS
cM Map	4	49.6	UniSTS
cM Map	13	52.0	UniSTS

UniSTS:489064

Mouse Assembly	Chr	Position (strand)	Source
Celera	13	102,010,608 - 102,012,206	UniSTS
Cytogenetic Map	13	D1	UniSTS
cM Map	13	52.0	UniSTS

UniSTS:495469

Mouse Assembly	Chr	Position (strand)	Source
Celera	13	102,010,684 - 102,012,252	UniSTS
Cytogenetic Map	13	D1	UniSTS
cM Map	13	52.0	UniSTS

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_008242	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC121839	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK132390	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK142034	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK142838	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK164408	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	L38607	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSMUST00000105098 ⟹ ENSMUSP00000100725

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	13	98,490,750 - 98,495,813 (+)	Ensembl
GRCm38.p6 Ensembl	13	98,354,242 - 98,359,305 (+)	Ensembl

RefSeq Acc Id:

NM_008242 ⟹ NP_032268

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	13	98,490,753 - 98,493,213 (+)	NCBI
GRCm38	13	98,354,245 - 98,356,705 (+)	ENTREZGENE
MGSCv37	13	99,124,200 - 99,126,660 (+)	RGD
Celera	13	102,010,574 - 102,012,702 (+)	RGD
cM Map	13		ENTREZGENE

Sequence:

show sequence

ACTCAGCCCTGGCCTTGCCGAGCTCCGTTTCTAGATTCTCACTCCTCCCGCGCCCTTCTGGGCG
CCCGACACCGACTGGCCCGCCAGGGTCCAGCCACCCCCTCCTGGACTAACCGGGCTAAAGGGAC
CACAGTGGAAAAGGTCAAGTCTAGAGCGCCCGCCACCCGGTGCCCGCCGAGCCGGGGAGCGCAA
ACACCTCGCACAGCCCTGCTCGCCAAGTAGCGGAGCGGAGCGGCCCCAGCCACCTCCTGCAGCC
GCGCGTCGCAGAGTGGCGTCCTCGCTCCGGGTCCGCCGCTCCGGGATCGGCCTGGGGAGGCCAG
GGAGCCGGGAGCCCGGTGCCCCTATGTGCCGCCGCGCCACCGCGCCGCCCCAGCTATGACCCTG
AGCACGGAGATGTCCGATGCCTCCGGCCTCGCGGAGGAGACAGACATCGACGTGGTGGGGGAGG
GCGAGGACGACGAGGAGGAGGAGGACGATGACGACGAGGGCGGCGGCGGCCGCGGCGGCGGCGG
GTCCCGGTTGCCGAGCTCGGCCCAGCGGCGGAGGCGCTCTTACGCCGGGGAGGACGATCTCGAG
GACCTGGAGGAGGAGGACGACGATGACCTGCTGCTGGCCTCCCGGCCCGCCGCGTCCCCCGCGC
CTCCGGGTCCTGCGCCCGCCCCGGGGACCGGGTCGGGCGGCTGCAGCGGCGCCGGAGCGGGAGG
CGGCGCGGGAGGTGGTACGGGCGCGGGCACGGGCGGGGGCGCTAAGAATCCGCTGGTGAAGCCG
CCCTACTCGTACATCGCGCTCATCACCATGGCCATCCTGCAGAGCCCCAAGAAGCGCCTGACGC
TCAGCGAGATCTGCGAGTTCATCAGCAGCCGCTTCCCTTACTACCGGGAGAAGTTCCCCGCTTG
GCAGAACAGCATCCGTCACAACCTGTCGCTCAACGACTGCTTCGTCAAGATCCCGCGCGAACCG
GGCAACCCGGGCAAGGGCAACTACTGGACGCTCGACCCGGAGTCCGCAGATATGTTCGACAACG
GCAGCTTCCTGCGGCGCCGCAAGCGCTTCAAGCGCCAGCCGCTACTCGCTCCCCACGCGGCGGC
CGAGGCGCTGCTGCTGCGCGGTGCGGGGCCGGCGGCGGGCGCAGGGGACCCGGGCGCCGCGCTT
TTCCCGCCGCCGCCGCCACCGCCCGCCTGCGGCTACGGAGCCTACGGCTGCGCCTACGGCCTGC
AGCTGCCACCCTGCGCGCCGCCCTCCGCGCTCTTCGCTGCCGCCGCCGCGGCAGCCGCCGCCGC
CTTCCATCCGCACTCGCCCCCGCCGCCTCCTCCTCCTCCGCCGCCGCCTCCCGGTGCGGCCGCC
GAGCTGGCGCGGACCGCCTTCGGCTACCGGTCACACGCGCTGGCTGCCGCCCTGCCCGGCCCTT
TGCAGGCGGCCGCAGTCAAGGCGGGAGGCCCGGGCGCCGCAGCGCTCGCACGCTCGCCCTTCTC
CATCGAGAGCCTCATCGGGCGCACTCGGGGTCCCGCGGCCGCCGGGGCGCACGTCTCGTCCGGG
GCCGCCAGCGGGACCGCCCCGGGACCCGGGGGCGGGGGTTGCGCAGTACAGGCGGCTGCTGGTC
CCGCCGTCGCGCTCACCCGCTCGCTCGTGGTCGCCGCCGCGGCCGCCGCCTCCTCCGTGTCCTC
GTCCGCCGCGCTGGGGACTCTGCACCAAGGGACAGCGCTGTCCAGTGTGGAGAACTTTACTGCT
AGGATTTCCAATTGTTAGGAACGTCGTTAGCGCGCGGGAGAGCGAAGGTAGGACTCCCGGCTTC
TTTCTCCGGATGGGGGGGTTGGTTTCGTTCGCCCCTCCCGGTCCTCGGAGACCCCGCGCCCCCC
ATTTTCGCCGCTTCGGATTCTTGGACCAGACTGTGTTGGGCGACAGCTGGGGCGCCGCGCAGTT
TAGCTCAGAGGGTCCATCTATTTATGCAAAATCGCCCTATGCTGCAACCCTGACTTGGGGTGGG
AAGGAGGGGAGTCGCTCTGTCTTGGCACTAGGAATTTCCTTGACTTTTGACAAATTGAGAAAAA
ACAAAACAAAACAAGCAAAATCATCAAAACTAAGCCCTTTTTGAGGTGTAGAGATTCTCAGGTC
CAGGCGTTTTAAAAAATCAGTAATGTTTAAATGCAGCTTATAGAAAACCAGTAAAAGTCTCCAA
GAAATGCCTCTACTTGTTCACACTTGTTTGGTAGACTTTTTTCATGGAAAGAAAAAAAATTAAC
ATGTTTACACAAGAAATAAGTCGAAATTTACCATTTCCTATTTTTAACCTGTGTTTTGTATCAT
AATGGACATGCGGAATTTTTATTTTGTACTTACTACGTATTCTTTGCAAGGAGTATTGTAAATT
TTACTGGCAATTATTATTGTACTATTCTAATGTAAGATTTTTACACTTTTTTTCAGAAATAAAA
TGCTTAATTTTCAAAGAAAAGCCACCTAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_032268	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC42042	(Get FASTA)	NCBI Sequence Viewer
	BAE21140	(Get FASTA)	NCBI Sequence Viewer
	BAE24920	(Get FASTA)	NCBI Sequence Viewer
	BAE25207	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSMUSP00000100725
	ENSMUSP00000100725.4
GenBank Protein	Q61345	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_032268 ⟸ NM_008242

- UniProtKB:

Q3UQW8 (UniProtKB/Swiss-Prot), Q61345 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MTLSTEMSDASGLAEETDIDVVGEGEDDEEEEDDDDEGGGGRGGGGSRLPSSAQRRRRSYAGED
DLEDLEEEDDDDLLLASRPAASPAPPGPAPAPGTGSGGCSGAGAGGGAGGGTGAGTGGGAKNPL
VKPPYSYIALITMAILQSPKKRLTLSEICEFISSRFPYYREKFPAWQNSIRHNLSLNDCFVKIP
REPGNPGKGNYWTLDPESADMFDNGSFLRRRKRFKRQPLLAPHAAAEALLLRGAGPAAGAGDPG
AALFPPPPPPPACGYGAYGCAYGLQLPPCAPPSALFAAAAAAAAAAFHPHSPPPPPPPPPPPPG
AAAELARTAFGYRSHALAAALPGPLQAAAVKAGGPGAAALARSPFSIESLIGRTRGPAAAGAHV
SSGAASGTAPGPGGGGCAVQAAAGPAVALTRSLVVAAAAAASSVSSSAALGTLHQGTALSSVEN
FTARISNC

hide sequence

RefSeq Acc Id:

ENSMUSP00000100725 ⟸ ENSMUST00000105098

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q61345-F1-model_v2	AlphaFold	Q61345	1-456	view protein structure

Promoters

RGD ID:

8681112

Promoter ID:

EPDNEW_M18587

Type:

multiple initiation site

Name:

Foxd1_1

Description:

Mus musculus forkhead box D1 , mRNA.

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38	13	98,354,243 - 98,354,303	EPDNEW

RGD ID:

6823910

Promoter ID:

MM_KWN:15018

Type:

CpG-Island

SO ACC ID:

SO:0000170

Source:

MPROMDB

Tissues & Cell Lines:

3T3L1_Day0, 3T3L1_Day2, 3T3L1_Day3, 3T3L1_Day4, Brain, ES_Cell, Kidney, Lung, MEF_B4, MEF_B6

Transcripts:

NM_008242

Position:

Mouse Assembly	Chr	Position (strand)	Source
MGSCv36	13	99,124,116 - 99,126,142 (+)	MPROMDB

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	MGI:1347463	AgrOrtholog
Ensembl Genes	ENSMUSG00000050789
	ENSMUSG00000078302	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSMUST00000105098	ENTREZGENE
	ENSMUST00000105098.6	UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.10.10	UniProtKB/Swiss-Prot
InterPro	Fork_head_dom	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:15229	UniProtKB/Swiss-Prot
MGD	MGI:1347463	ENTREZGENE
NCBI Gene	15229	ENTREZGENE
PANTHER	FORKHEAD BOX PROTEIN	UniProtKB/Swiss-Prot
	FORKHEAD BOX PROTEIN D1	UniProtKB/Swiss-Prot
Pfam	Forkhead	UniProtKB/Swiss-Prot
PhenoGen	Foxd1	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	FOXD1_MOUSE	UniProtKB/Swiss-Prot
	Q3UQ37_MOUSE	UniProtKB/TrEMBL
	Q3UQW8	ENTREZGENE
	Q61345	ENTREZGENE
UniProt Secondary	Q3UQW8	UniProtKB/Swiss-Prot

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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