Sox4 (SRY (sex determining region Y)-box 4) - Rat Genome Database

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Gene: Sox4 (SRY (sex determining region Y)-box 4) Mus musculus
Analyze
Symbol: Sox4
Name: SRY (sex determining region Y)-box 4
RGD ID: 1319855
MGI Page MGI
Description: Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and miRNA binding activity. Involved in several processes, including animal organ development; nervous system development; and positive regulation of cell communication. Acts upstream of or within endocrine pancreas development; hematopoietic stem cell homeostasis; and somatic stem cell population maintenance. Located in nucleus. Part of transcription regulator complex. Is active in cytoplasm. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; limb; and sensory organ. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome and urinary bladder cancer. Orthologous to human SOX4 (SRY-box transcription factor 4); INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: AA682046; Sox; Sox-4; SRY-box containing gene 4; transcription factor SOX-4
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391329,132,902 - 29,137,682 (-)NCBIGRCm39mm39
GRCm39 Ensembl1329,132,902 - 29,137,696 (-)Ensembl
GRCm381328,948,919 - 28,953,699 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1328,948,919 - 28,953,713 (-)EnsemblGRCm38mm10GRCm38
MGSCv371329,042,585 - 29,045,551 (-)NCBIGRCm37mm9NCBIm37
MGSCv361328,958,181 - 28,961,147 (-)NCBImm8
Celera1329,175,127 - 29,178,093 (-)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map1312.87NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (EXP)
1-naphthyl isothiocyanate  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (ISO)
2-acetamidofluorene  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-butoxyethanol  (EXP)
2-hydroxypropanoic acid  (ISO)
2-methylcholine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (EXP)
4-phenylbutyric acid  (ISO)
4-vinylcyclohexene dioxide  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (ISO)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
anthracen-2-amine  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (EXP)
beta-D-glucosamine  (ISO)
bisphenol A  (EXP,ISO)
calciol  (EXP)
calcitriol  (ISO)
camptothecin  (ISO)
cannabidiol  (EXP)
carbon nanotube  (EXP)
celastrol  (ISO)
chloroprene  (EXP,ISO)
choline  (EXP)
chrysene  (EXP)
cisplatin  (EXP,ISO)
clobetasol  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (EXP)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
dioxygen  (EXP)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
entinostat  (ISO)
ethyl methanesulfonate  (ISO)
fenvalerate  (ISO)
fluoranthene  (EXP)
folic acid  (EXP,ISO)
formaldehyde  (ISO)
furan  (ISO)
gedunin  (ISO)
genistein  (ISO)
gentamycin  (ISO)
graphene oxide  (EXP)
hydroquinone  (ISO)
indometacin  (ISO)
ketamine  (ISO)
L-methionine  (EXP)
lead diacetate  (EXP)
leflunomide  (ISO)
methimazole  (EXP,ISO)
methoxychlor  (EXP)
methyl methanesulfonate  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
O-methyleugenol  (ISO)
orphenadrine  (ISO)
oxaliplatin  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
phenobarbital  (EXP)
phosgene  (EXP)
pirinixic acid  (EXP,ISO)
potassium chromate  (ISO)
progesterone  (EXP,ISO)
propiconazole  (EXP)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (EXP)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (EXP)
silicon dioxide  (ISO)
silver atom  (EXP,ISO)
silver(0)  (EXP,ISO)
sodium arsenite  (ISO)
Soman  (ISO)
sulforaphane  (ISO)
tamoxifen  (EXP)
temozolomide  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP)
tetraphene  (EXP)
thioacetamide  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
troglitazone  (EXP)
tungsten  (EXP)
tunicamycin  (ISO)
valproic acid  (EXP,ISO)
vancomycin  (EXP)
vinclozolin  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anatomical structure morphogenesis  (IBA)
ascending aorta morphogenesis  (IMP)
atrial septum primum morphogenesis  (IMP)
cardiac right ventricle morphogenesis  (IMP)
cardiac ventricle formation  (IMP)
cell differentiation  (IBA)
cellular response to glucose stimulus  (IMP)
DNA damage response, detection of DNA damage  (ISO)
DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest  (ISO)
endocrine pancreas development  (IMP)
glial cell development  (IMP)
glial cell proliferation  (IMP)
glucose homeostasis  (IMP)
heart development  (IMP)
hematopoietic stem cell homeostasis  (IMP)
kidney morphogenesis  (IMP)
limb bud formation  (IMP)
mitral valve morphogenesis  (IMP)
negative regulation of cell death  (IMP)
negative regulation of cell population proliferation  (ISO)
negative regulation of protein ubiquitination  (ISO)
neural tube formation  (IMP)
neuroepithelial cell differentiation  (IMP)
noradrenergic neuron differentiation  (IMP)
positive regulation of apoptotic process  (ISO)
positive regulation of canonical Wnt signaling pathway  (IDA,IMP)
positive regulation of cell population proliferation  (IMP,ISO)
positive regulation of gamma-delta T cell differentiation  (IMP)
positive regulation of insulin secretion  (IMP)
positive regulation of N-terminal peptidyl-lysine acetylation  (ISO)
positive regulation of transcription by RNA polymerase II  (IBA,IDA,ISO)
positive regulation of transcription, DNA-templated  (IDA,ISO)
positive regulation of translation  (ISO)
pro-B cell differentiation  (IMP)
protein stabilization  (IMP,ISO)
regulation of protein stability  (ISO)
regulation of transcription, DNA-templated  (IBA,IMP,ISO)
response to hypoxia  (ISO)
skeletal system development  (IMP)
somatic stem cell population maintenance  (IDA)
spinal cord development  (IMP)
spinal cord motor neuron differentiation  (IMP)
sympathetic nervous system development  (IMP)
T cell differentiation  (IMP)
ventricular septum morphogenesis  (IMP)

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal aortic arch morphology  (IAGP)
abnormal aorticopulmonary septum morphology  (IAGP)
abnormal atrioventricular valve morphology  (IAGP)
abnormal axon fasciculation  (IAGP)
abnormal B cell differentiation  (IAGP)
abnormal blood circulation  (IAGP)
abnormal bone mineralization  (IAGP)
abnormal cardiovascular development  (IAGP)
abnormal cell death  (IAGP)
abnormal conotruncal ridge morphology  (IAGP)
abnormal coronary artery morphology  (IAGP)
abnormal cranium morphology  (IAGP)
abnormal eye development  (IAGP)
abnormal heart development  (IAGP)
abnormal heart morphology  (IAGP)
abnormal innervation pattern to muscle  (IAGP)
abnormal interventricular septum morphology  (IAGP)
abnormal kidney development  (IAGP)
abnormal limb mesenchyme morphology  (IAGP)
abnormal lumbar vertebrae morphology  (IAGP)
abnormal lung development  (IAGP)
abnormal Meibomian gland morphology  (IAGP)
abnormal mitral valve morphology  (IAGP)
abnormal myocardium layer morphology  (IAGP)
abnormal nervous system development  (IAGP)
abnormal neural tube morphology  (IAGP)
abnormal notochord morphology  (IAGP)
abnormal pharyngeal arch development  (IAGP)
abnormal pharyngeal arch mesenchyme morphology  (IAGP)
abnormal retina morphology  (IAGP)
abnormal retinal bipolar cell morphology  (IAGP)
abnormal retinal outer plexiform layer morphology  (IAGP)
abnormal semilunar valve morphology  (IAGP)
abnormal skeleton development  (IAGP)
abnormal stellate ganglion morphology  (IAGP)
abnormal sternebra morphology  (IAGP)
abnormal sympathetic ganglion morphology  (IAGP)
abnormal sympathetic neuron innervation pattern  (IAGP)
abnormal vertebrae morphology  (IAGP)
abnormal xiphoid process morphology  (IAGP)
absent limb buds  (IAGP)
absent optic nerve  (IAGP)
absent pre-B cells  (IAGP)
absent retinal ganglion cell  (IAGP)
absent retinal ganglion layer  (IAGP)
absent retinal inner plexiform layer  (IAGP)
aphakia  (IAGP)
blepharoptosis  (IAGP)
cardia bifida  (IAGP)
cleft palate  (IAGP)
decreased amacrine cell number  (IAGP)
decreased birth body size  (IAGP)
decreased cell proliferation  (IAGP)
decreased circulating insulin level  (IAGP)
decreased embryo size  (IAGP)
decreased insulin secretion  (IAGP)
decreased pro-B cell number  (IAGP)
decreased retinal ganglion cell number  (IAGP)
double outlet right ventricle  (IAGP)
edema  (IAGP)
embryonic growth arrest  (IAGP)
embryonic lethality during organogenesis, complete penetrance  (IAGP)
extremity edema  (IAGP)
eyelids open at birth  (IAGP)
failure of conotruncal ridge closure  (IAGP)
failure of heart looping  (IAGP)
heart valve hypoplasia  (IAGP)
holoprosencephaly  (IAGP)
hydrops fetalis  (IAGP)
impaired glucose tolerance  (IAGP)
impaired somite development  (IAGP)
incomplete embryo turning  (IAGP)
incomplete rostral neuropore closure  (IAGP)
increased anxiety-related response  (IAGP)
increased heart rate  (IAGP)
increased retinal apoptosis  (IAGP)
interrupted aortic arch  (IAGP)
kinked neural tube  (IAGP)
lethality throughout fetal growth and development, complete penetrance  (IAGP)
micrognathia  (IAGP)
microphthalmia  (IAGP)
no abnormal phenotype detected  (IAGP)
omphalocele  (IAGP)
open neural tube  (IAGP)
optic nerve hypoplasia  (IAGP)
ostium primum atrial septal defect  (IAGP)
perimembraneous ventricular septal defect  (IAGP)
perinatal lethality, complete penetrance  (IAGP)
persistent right dorsal aorta  (IAGP)
persistent truncus arteriosis  (IAGP)
postnatal lethality, complete penetrance  (IAGP)
prenatal lethality, complete penetrance  (IAGP)
renal hypoplasia  (IAGP)
small lung  (IAGP)
small spleen  (IAGP)
small superior cervical ganglion  (IAGP)
sternebra fusion  (IAGP)
sternum hypoplasia  (IAGP)
subarterial ventricular septal defect  (IAGP)
thick interventricular septum  (IAGP)
thin retinal ganglion layer  (IAGP)
thin retinal inner nuclear layer  (IAGP)
thymus hypoplasia  (IAGP)
tracheoesophageal fistula  (IAGP)
ventricular septal defect  (IAGP)
wavy neural tube  (IAGP)
wide cranial sutures  (IAGP)
References

Additional References at PubMed
PMID:1614875   PMID:2374589   PMID:7590241   PMID:7821514   PMID:8244390   PMID:8404853   PMID:8441686   PMID:8493110   PMID:8530483   PMID:8614465   PMID:8625802   PMID:8889548  
PMID:8921394   PMID:9000753   PMID:9174623   PMID:9515963   PMID:9632656   PMID:9730625   PMID:10037800   PMID:10349636   PMID:10610183   PMID:10673281   PMID:10729834   PMID:10922068  
PMID:10925158   PMID:11042159   PMID:11071752   PMID:11076861   PMID:11180952   PMID:11217851   PMID:11404013   PMID:11437454   PMID:11641716   PMID:12447396   PMID:12477932   PMID:12815626  
PMID:14648841   PMID:14681479   PMID:15018818   PMID:15226823   PMID:15342473   PMID:15345747   PMID:15618518   PMID:15645444   PMID:15665292   PMID:15782199   PMID:15799026   PMID:16107646  
PMID:16109771   PMID:16141072   PMID:16141073   PMID:16306355   PMID:16602821   PMID:16728477   PMID:16925795   PMID:17046737   PMID:17507571   PMID:17515609   PMID:17652162   PMID:17875931  
PMID:18038450   PMID:18064674   PMID:18287559   PMID:18374910   PMID:18403418   PMID:18477811   PMID:18505825   PMID:18593557   PMID:18799693   PMID:19030180   PMID:19369396   PMID:19379700  
PMID:19386638   PMID:19799774   PMID:20080598   PMID:20147379   PMID:20356956   PMID:20412781   PMID:20436479   PMID:20596238   PMID:20646169   PMID:20692247   PMID:21267068   PMID:21362171  
PMID:21525287   PMID:21527504   PMID:21538160   PMID:21731673   PMID:21779394   PMID:21801425   PMID:21873635   PMID:21878674   PMID:22084397   PMID:22181698   PMID:22277947   PMID:22344693  
PMID:22378879   PMID:22560297   PMID:22627767   PMID:22678282   PMID:22751141   PMID:22988430   PMID:23144197   PMID:23152540   PMID:23313252   PMID:23318640   PMID:23345330   PMID:23559562  
PMID:23562159   PMID:23566091   PMID:23649630   PMID:23764001   PMID:23933087   PMID:24046453   PMID:24154525   PMID:24183681   PMID:24310815   PMID:24586749   PMID:24786772   PMID:24952961  
PMID:24982181   PMID:24997151   PMID:25043184   PMID:25142465   PMID:25189881   PMID:25452386   PMID:25652387   PMID:25761772   PMID:25775587   PMID:25899854   PMID:26033091   PMID:26123487  
PMID:26203155   PMID:26238476   PMID:26291311   PMID:26371188   PMID:26504244   PMID:26525672   PMID:26701805   PMID:26802803   PMID:26826126   PMID:26856660   PMID:26864488   PMID:26880577  
PMID:26930384   PMID:26993066   PMID:27084453   PMID:27241892   PMID:28118982   PMID:28215559   PMID:28411269   PMID:28432216   PMID:28495880   PMID:28808228   PMID:29031500   PMID:29038881  
PMID:29513653   PMID:29749639   PMID:30055169   PMID:30135482   PMID:30181160   PMID:30287480   PMID:30329130   PMID:30871468   PMID:30922563   PMID:31155355   PMID:31408364   PMID:31492871  
PMID:31838787   PMID:33084572   PMID:33579706   PMID:33674582  


Genomics

Comparative Map Data
Sox4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391329,132,902 - 29,137,682 (-)NCBIGRCm39mm39
GRCm39 Ensembl1329,132,902 - 29,137,696 (-)Ensembl
GRCm381328,948,919 - 28,953,699 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1328,948,919 - 28,953,713 (-)EnsemblGRCm38mm10GRCm38
MGSCv371329,042,585 - 29,045,551 (-)NCBIGRCm37mm9NCBIm37
MGSCv361328,958,181 - 28,961,147 (-)NCBImm8
Celera1329,175,127 - 29,178,093 (-)NCBICelera
Cytogenetic Map13A3.1NCBI
cM Map1312.87NCBI
SOX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl621,593,751 - 21,598,619 (+)EnsemblGRCh38hg38GRCh38
GRCh38621,593,751 - 21,598,619 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37621,593,982 - 21,598,850 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36621,701,951 - 21,706,829 (+)NCBINCBI36hg18NCBI36
Build 34621,701,950 - 21,706,826NCBI
Celera622,827,304 - 22,832,182 (+)NCBI
Cytogenetic Map6p22.3NCBI
HuRef621,537,779 - 21,542,257 (+)NCBIHuRef
CHM1_1621,596,072 - 21,600,948 (+)NCBICHM1_1
Sox4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21735,667,809 - 35,672,515 (+)NCBI
Rnor_6.01737,615,022 - 37,619,728 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01739,476,956 - 39,481,662 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41742,172,863 - 42,177,590 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11742,175,727 - 42,178,618 (+)NCBI
Celera1735,186,015 - 35,190,495 (+)NCBICelera
Cytogenetic Map17p12NCBI
Sox4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554835,076,664 - 5,077,059 (-)NCBIChiLan1.0ChiLan1.0
SOX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1621,765,921 - 21,771,728 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0621,422,846 - 21,427,779 (+)NCBIMhudiblu_PPA_v0panPan3
SOX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13520,098,783 - 20,101,357 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3520,099,773 - 20,101,154 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3520,057,136 - 20,059,714 (+)NCBI
ROS_Cfam_1.03520,209,623 - 20,212,209 (+)NCBI
UMICH_Zoey_3.13520,010,721 - 20,014,021 (+)NCBI
UNSW_CanFamBas_1.03520,075,381 - 20,077,956 (+)NCBI
UU_Cfam_GSD_1.03521,494,787 - 21,497,360 (+)NCBI
SOX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1716,886,834 - 16,895,488 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2717,852,748 - 17,857,158 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Sox4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247565,128,848 - 5,156,174 (-)NCBI

Position Markers
Sox4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381328,951,652 - 28,951,861UniSTSGRCm38
MGSCv371329,043,521 - 29,043,730UniSTSGRCm37
Celera1329,176,063 - 29,176,272UniSTS
Cytogenetic Map13A3-A5UniSTS
cM Map1320.0UniSTS
AA682046  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381328,950,867 - 28,951,100UniSTSGRCm38
MGSCv371329,042,736 - 29,042,969UniSTSGRCm37
Celera1329,175,278 - 29,175,511UniSTS
Cytogenetic Map13A3-A5UniSTS
Whitehead/MRC_RH13323.86UniSTS
RH79983  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381328,949,856 - 28,950,057UniSTSGRCm38
MGSCv371329,041,725 - 29,041,926UniSTSGRCm37
Celera1329,174,267 - 29,174,468UniSTS
Cytogenetic Map13A3-A5UniSTS
Sox4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13A3-A5UniSTS
Sox4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381328,951,783 - 28,951,873UniSTSGRCm38
MGSCv371329,043,652 - 29,043,742UniSTSGRCm37
Celera1329,176,194 - 29,176,284UniSTS
Cytogenetic Map13A3-A5UniSTS
Sox4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381328,950,556 - 28,950,893UniSTSGRCm38
MGSCv371329,042,425 - 29,042,762UniSTSGRCm37
Celera1329,174,967 - 29,175,304UniSTS
Cytogenetic Map13A3-A5UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301255Cd4ts6_mCD4 T cell subset 6 (mouse)Not determined13133994099Mouse
10449140Eosn2_meosinophil differential 2 (mouse)134672634046726Mouse
15039338Nmrs34_mNAFLD-associated magnetic resonance shift 34 (mouse)134672634046726Mouse
1301455Bmd3_mbone mineral density 3 (mouse)Not determined13329344237293650Mouse
10045624Heal24_mwound healing/regeneration (mouse)Not determined13329344237293650Mouse
10045625Heal23_mwound healing/regeneration 23 (mouse)Not determined13329344237293650Mouse
1301367Twq1_mtestis weight QTL 1 (mouse)Not determined13343134237431502Mouse
1301733Heal3_mwound healing/regeneration 3 (mouse)Not determined13349603037496173Mouse
26884393Humsd7_mhumerus midshaft diameter 7, 16 week (mouse)13390000075900000Mouse
1558898Hpi1_mhapatic PMN infiltration 1 (mouse)Not determined13436402652947604Mouse
10402494Igmsc1_mimmunoglobulin M secreting cells 1 (mouse)Not determined131699396044765084Mouse
1301984Pbd2_mpeak bone density 2 (mouse)Not determined131701492338763430Mouse
1301880Hypt_mhypertension (mouse)Not determined131797280951972941Mouse
13463469Gssq1_mglomerulosclerosis severity QTL 1 (mouse)131887692552877067Mouse
12880423V25Dq7_mvitamin D inactive form serum level QTL 7 (mouse)131940000053400000Mouse
1301015Sysbp2_msystolic blood pressure 2 (mouse)Not determined132029344259673791Mouse
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20293442112761890Mouse
1357591Tesq1_mtestis weight QTL 1 (mouse)Not determined132043134255572704Mouse
4142009Pregq3_mpregnancy QTL 3 (mouse)Not determined132043134272237070Mouse
10045618Heal17_mwound healing/regeneration 17 (mouse)Not determined132056296354563080Mouse
1558844Lith15_mlithogenic gene 15 (mouse)Not determined132176326255763430Mouse
4142489Ath25_matherosclerosis 25 (mouse)Not determined2568305359683053Mouse
10401111Pgia40_mproteoglycan induced arthritis 40 (mouse)Not determined132776499361765084Mouse
1300710Pcd4ts2_mp-glycoprotein positive CD4 T cell subset 2 (mouse)Not determined132805696662057068Mouse
1357802Vtbt15_mvertebral trabecular bone trait 15 (mouse)Not determined132806390362064039Mouse
10045621Heal21_mwound healing/regeneration 21 (mouse)Not determined132806390362064039Mouse

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir129-1mmu-miR-129-5pOncomiRDBexternal_infoNANA20331975
Mir129-1mmu-miR-129-5pOncomiRDBexternal_infoNANA19887623
Mir122mmu-miR-122-5pMirtarbaseexternal_infoLuciferase reporter assay//Microarray//qRT-PCRFunctional MTI22820290
Mir138-1mmu-miR-138-5pOncomiRDBexternal_infoNANA23389731
Mir138-2mmu-miR-138-5pOncomiRDBexternal_infoNANA23389731
Mir129-2mmu-miR-129-5pOncomiRDBexternal_infoNANA20331975
Mir129-2mmu-miR-129-5pOncomiRDBexternal_infoNANA19887623

Predicted Target Of
Summary Value
Count of predictions:1075
Count of miRNA genes:520
Interacting mature miRNAs:645
Transcripts:ENSMUST00000067230
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.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_009238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK028989 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK031394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK051540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK054386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK153771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK177344 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK179796 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK187111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK187427 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK195237 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK197013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK205118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK212521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL606511 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB570163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB678274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC052736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC060669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EH106705 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U70440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X70298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000067230   ⟹   ENSMUSP00000100013
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1328,948,919 - 28,953,713 (-)Ensembl
RefSeq Acc Id: NM_009238   ⟹   NP_033264
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391329,132,902 - 29,137,682 (-)NCBI
GRCm381328,948,919 - 28,953,699 (-)NCBI
MGSCv371329,042,585 - 29,045,551 (-)RGD
Celera1329,175,127 - 29,178,093 (-)RGD
cM Map13 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_033264   ⟸   NM_009238
- UniProtKB: Q06831 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000100013   ⟸   ENSMUST00000067230
Protein Domains
HMG box

Promoters
RGD ID:8679970
Promoter ID:EPDNEW_M18016
Type:multiple initiation site
Name:Sox4_1
Description:Mus musculus SRY -box 4 , 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
GRCm381328,953,697 - 28,953,757EPDNEW
RGD ID:6824411
Promoter ID:MM_KWN:13669
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000110326,   NM_009238
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361329,042,286 - 29,045,557 (-)MPROMDB
RGD ID:6848634
Promoter ID:MM_TRO:2433
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   Brain,   ES_Cell,   Kidney,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:MTR044135.13.534.5
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361329,049,781 - 29,051,652 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:98366 AgrOrtholog
Ensembl Genes ENSMUSG00000043626
  ENSMUSG00000076431 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000100013 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000067230 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOX-11/4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:20677 UniProtKB/Swiss-Prot
MGD MGI:98366 ENTREZGENE
NCBI Gene 20677 ENTREZGENE
Pfam HMG_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sox4 PhenoGen
PIRSF SOX-12/11/4a UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HMG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt Q06831 ENTREZGENE
  Q3U5A1_MOUSE UniProtKB/TrEMBL
  Q8BPK5_MOUSE UniProtKB/TrEMBL
  Q8BQ53_MOUSE UniProtKB/TrEMBL
  Q8CE56_MOUSE UniProtKB/TrEMBL
  SOX4_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q5SW95 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-26 Sox4  SRY (sex determining region Y)-box 4    SRY-box containing gene 4  Symbol and/or name change 5135510 APPROVED