Satb2 (special AT-rich sequence binding protein 2) - Rat Genome Database

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Gene: Satb2 (special AT-rich sequence binding protein 2) Mus musculus
Analyze
Symbol: Satb2
Name: special AT-rich sequence binding protein 2
RGD ID: 1558379
MGI Page MGI
Description: Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and chromatin binding activity. Acts upstream of or within several processes, including osteoblast development; regulation of transcription by RNA polymerase II; and skeletal system development. Located in nucleus. Part of histone deacetylase complex and transcription regulator complex. Is expressed in several structures, including 1st branchial arch; central nervous system; facial prominence; genitourinary system; and limb. Used to study isolated cleft palate. Human ortholog(s) of this gene implicated in SATB2-associated syndrome. Orthologous to human SATB2 (SATB homeobox 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BAP0; BAP002; DNA-binding protein SATB2; KIAA1034-like DNA binding protein; mKIAA1034; special AT-rich sequence-binding protein 2; two cut domains-containing homeodomain protein
RGD Orthologs
Human
Rat
Chinchilla
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
GRCm39156,833,145 - 57,019,350 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl156,833,140 - 57,017,809 (-)EnsemblGRCm39 Ensembl
GRCm38156,793,981 - 56,981,190 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl156,793,981 - 56,978,650 (-)EnsemblGRCm38mm10GRCm38
MGSCv37156,850,825 - 57,028,178 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36156,740,812 - 56,915,879 (-)NCBIMGSCv36mm8
Celera157,309,396 - 57,486,902 (-)NCBICelera
Cytogenetic Map1C1.3NCBI
cM Map128.72NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (EXP)
3-chloropropane-1,2-diol  (ISO)
5-aza-2'-deoxycytidine  (EXP)
6-propyl-2-thiouracil  (EXP,ISO)
acetamide  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amosite asbestos  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
butanal  (ISO)
C60 fullerene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbamazepine  (ISO)
CGP 52608  (ISO)
chromium atom  (ISO)
cisplatin  (ISO)
clozapine  (ISO)
cocaine  (EXP)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
diiodine  (EXP)
dorsomorphin  (ISO)
endosulfan  (ISO)
folic acid  (EXP)
formaldehyde  (ISO)
FR900359  (ISO)
glycerol 2-phosphate  (ISO)
GW 4064  (EXP)
haloperidol  (ISO)
hypochlorous acid  (EXP)
ketamine  (ISO)
L-ascorbic acid  (ISO)
lead(0)  (ISO)
mercury dibromide  (ISO)
methoxychlor  (ISO)
methylisothiazolinone  (ISO)
mitoxantrone  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (ISO)
PCB138  (EXP)
potassium chromate  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
titanium dioxide  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
valproic acid  (ISO)
vinclozolin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal bone mineralization  (IAGP)
abnormal bone ossification  (IAGP)
abnormal bone structure  (IAGP)
abnormal craniofacial morphology  (IEA)
abnormal cranium morphology  (IAGP)
abnormal first pharyngeal arch morphology  (IAGP)
abnormal frontal bone morphology  (IAGP)
abnormal hyoid bone body morphology  (IAGP)
abnormal hyoid bone lesser horn morphology  (IAGP)
abnormal hyoid bone morphology  (IAGP)
abnormal incisor morphology  (IAGP)
abnormal jaw morphology  (IAGP)
abnormal mandible morphology  (IAGP)
abnormal maxilla morphology  (IAGP)
abnormal molar morphology  (IAGP)
abnormal nasal bone morphology  (IAGP)
abnormal nasal capsule morphology  (IAGP)
abnormal palate morphology  (IAGP)
abnormal premaxilla morphology  (IAGP)
abnormal retina morphology  (IEA)
abnormal temporal bone morphology  (IAGP)
abnormal trabecular bone morphology  (IAGP)
abnormal uterus morphology  (IEA)
absent incisors  (IAGP)
absent lower incisors  (IAGP)
absent submandibular gland  (IAGP)
absent thyroid cartilage  (IAGP)
asymmetric snout  (IAGP)
brittle teeth  (IAGP)
cleft palate  (IAGP)
cleft secondary palate  (IAGP)
cleft upper lip  (IAGP)
decreased bone mineral density  (IAGP)
decreased bone ossification  (IAGP)
decreased bone trabecula number  (IAGP)
decreased bone volume  (IAGP)
decreased mouth size  (IAGP)
decreased tongue size  (IAGP)
enlarged lymph nodes  (IEA)
impaired osteoblast differentiation  (IAGP)
increased circulating alkaline phosphatase level  (IAGP)
increased circulating calcium level  (IAGP)
increased mean corpuscular volume  (IEA)
microcephaly  (IAGP)
micrognathia  (IAGP)
palatal shelves fail to meet at midline  (IAGP)
perinatal lethality  (IAGP)
perinatal lethality, complete penetrance  (IAGP)
premaxilla hypoplasia  (IAGP)
preweaning lethality, complete penetrance  (IEA)
preweaning lethality, incomplete penetrance  (IAGP)
short hindlimb  (IAGP)
short limbs  (IAGP)
short mandible  (IAGP)
short maxilla  (IAGP)
short snout  (IAGP)
short tongue  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, etal., DNA Res 2003 Aug 31;10(4):167-80.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:12915443   PMID:14681479   PMID:14701874   PMID:15733084   PMID:16141072   PMID:16141073  
PMID:16602821   PMID:16751105   PMID:16829211   PMID:16901480   PMID:16960803   PMID:17158062   PMID:17644613   PMID:18077674   PMID:18255030   PMID:18255031   PMID:18287559   PMID:18288204  
PMID:18403412   PMID:18634775   PMID:18794345   PMID:18799693   PMID:19571125   PMID:19605412   PMID:19709629   PMID:19782673   PMID:19820705   PMID:19838179   PMID:19859539   PMID:19933152  
PMID:19961580   PMID:20093372   PMID:20348416   PMID:20362541   PMID:20410112   PMID:20412781   PMID:20413449   PMID:20506362   PMID:20651846   PMID:20653027   PMID:20798045   PMID:20829881  
PMID:20943929   PMID:20980664   PMID:21089028   PMID:21150899   PMID:21220099   PMID:21267068   PMID:21338885   PMID:21368052   PMID:21385070   PMID:21460838   PMID:21525285   PMID:21549111  
PMID:21673655   PMID:21677750   PMID:21737879   PMID:21743471   PMID:21828043   PMID:21862448   PMID:21873635   PMID:21885532   PMID:21965613   PMID:21965674   PMID:22017987   PMID:22031906  
PMID:22056358   PMID:22090513   PMID:22095278   PMID:22166200   PMID:22174821   PMID:22212101   PMID:22219353   PMID:22266795   PMID:22284184   PMID:22334647   PMID:22365545   PMID:22405202  
PMID:22479201   PMID:22516202   PMID:22522401   PMID:22527485   PMID:22542597   PMID:22564414   PMID:22570222   PMID:22661412   PMID:22689450   PMID:22723706   PMID:22810622   PMID:22879516  
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PMID:23303943   PMID:23382203   PMID:23386513   PMID:23396189   PMID:23499385   PMID:23525041   PMID:23623502   PMID:23637172   PMID:23643363   PMID:23749646   PMID:23765158   PMID:23895693  
PMID:23925499   PMID:23968833   PMID:24014668   PMID:24056077   PMID:24165879   PMID:24194544   PMID:24209760   PMID:24218084   PMID:24220505   PMID:24301385   PMID:24363063   PMID:24381249  
PMID:24453338   PMID:24553927   PMID:24595293   PMID:24726360   PMID:24739528   PMID:24781987   PMID:24850858   PMID:24917275   PMID:24952961   PMID:24982181   PMID:24997765   PMID:25037921  
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PMID:25556833   PMID:25575549   PMID:25631876   PMID:25698753   PMID:25838543   PMID:25875176   PMID:25934499   PMID:25971728   PMID:26010426   PMID:26071364   PMID:26182416   PMID:26209645  
PMID:26248544   PMID:26287463   PMID:26290337   PMID:26324926   PMID:26341353   PMID:26371318   PMID:26382033   PMID:26387942   PMID:26431380   PMID:26509897   PMID:26579598   PMID:26596517  
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PMID:27214567   PMID:27282384   PMID:27307230   PMID:27320921   PMID:27321927   PMID:27476503   PMID:27478017   PMID:27600842   PMID:27618312   PMID:27626380   PMID:27664421   PMID:27668656  
PMID:27707753   PMID:27760310   PMID:27791111   PMID:27806305   PMID:27897969   PMID:28041877   PMID:28272472   PMID:28288114   PMID:28289135   PMID:28299779   PMID:28421537   PMID:28551284  
PMID:28584103   PMID:28782628   PMID:28808228   PMID:28939666   PMID:28965759   PMID:29031500   PMID:29088697   PMID:29099309   PMID:29335608   PMID:29374155   PMID:29379878   PMID:29435145  
PMID:29581187   PMID:29750936   PMID:29779877   PMID:29779941   PMID:29867343   PMID:29874574   PMID:29899142   PMID:29901792   PMID:29939162   PMID:29961578   PMID:30037926   PMID:30065628  
PMID:30093555   PMID:30201687   PMID:30210296   PMID:30240734   PMID:30264295   PMID:30329130   PMID:30392794   PMID:30445565   PMID:30523785   PMID:30538199   PMID:30560934   PMID:30626697  
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PMID:31087513   PMID:31089719   PMID:31317506   PMID:31318893   PMID:31325654   PMID:31462248   PMID:31504280   PMID:31515109   PMID:31539139   PMID:31655624   PMID:31666685   PMID:31679934  
PMID:31680851   PMID:31680852   PMID:31699896   PMID:31740755   PMID:31749685   PMID:31801076   PMID:31816041   PMID:31914388   PMID:31919497   PMID:32037591   PMID:32097653   PMID:32103003  
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PMID:32518258   PMID:32541003   PMID:32541879   PMID:32707082   PMID:32737294   PMID:32840212   PMID:32873389   PMID:32888487   PMID:33116259   PMID:33200984   PMID:33220177   PMID:33304758  
PMID:33431851   PMID:33462115   PMID:33510165   PMID:33523829   PMID:33579706   PMID:33585465   PMID:33597191   PMID:33602870   PMID:33622776   PMID:33660290   PMID:33708771   PMID:33723434  
PMID:33739968   PMID:33772537   PMID:33774122   PMID:33787491   PMID:33907211   PMID:33938018   PMID:34019815   PMID:34059773   PMID:34073140   PMID:34107259   PMID:34145365   PMID:34161768  
PMID:34163074   PMID:34184026   PMID:34188164   PMID:34237032   PMID:34244292   PMID:34262022   PMID:34301831   PMID:34321664   PMID:34321999   PMID:34407390   PMID:34469723   PMID:34473715  
PMID:34546353   PMID:34556581   PMID:34564702   PMID:34601063   PMID:34732824   PMID:34815315   PMID:34931379   PMID:34935271   PMID:34963132   PMID:34992132   PMID:35020876   PMID:35135854  
PMID:35245678   PMID:35326417   PMID:35361248   PMID:35361962   PMID:35372333   PMID:35379703   PMID:35544642   PMID:35604347   PMID:35613274   PMID:35753011   PMID:35903551   PMID:35915089  
PMID:35917186   PMID:35927240   PMID:35930666   PMID:35931079   PMID:35977029   PMID:36028553   PMID:36095192   PMID:36103829   PMID:36111785   PMID:36130488   PMID:36153792   PMID:36228617  
PMID:36248641   PMID:36313771   PMID:36317965   PMID:36343267   PMID:36482253   PMID:36596698   PMID:36596814   PMID:36641753   PMID:36669109   PMID:36708662   PMID:36733269   PMID:36764294  
PMID:36793543   PMID:36795749   PMID:36843845   PMID:36916004   PMID:36933672   PMID:37071993   PMID:37237015   PMID:37272771   PMID:37291945   PMID:37327344   PMID:37348506   PMID:37463454  
PMID:37590085   PMID:37610874   PMID:37665322   PMID:37738575   PMID:37758766   PMID:37838801   PMID:37995181   PMID:38019816   PMID:38025769   PMID:38086370   PMID:38101002   PMID:38101413  
PMID:38238293   PMID:38280850   PMID:38355793   PMID:38402586   PMID:38429579   PMID:38452762   PMID:38487272   PMID:38489388   PMID:38636614   PMID:38697111   PMID:38713624   PMID:38733588  
PMID:38849354   PMID:39095712   PMID:39107332   PMID:39159043  


Genomics

Comparative Map Data
Satb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39156,833,145 - 57,019,350 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl156,833,140 - 57,017,809 (-)EnsemblGRCm39 Ensembl
GRCm38156,793,981 - 56,981,190 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl156,793,981 - 56,978,650 (-)EnsemblGRCm38mm10GRCm38
MGSCv37156,850,825 - 57,028,178 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36156,740,812 - 56,915,879 (-)NCBIMGSCv36mm8
Celera157,309,396 - 57,486,902 (-)NCBICelera
Cytogenetic Map1C1.3NCBI
cM Map128.72NCBI
SATB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382199,269,500 - 199,471,266 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2199,269,505 - 199,471,266 (-)EnsemblGRCh38hg38GRCh38
GRCh372200,134,223 - 200,335,989 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362199,842,469 - 200,033,446 (-)NCBINCBI36Build 36hg18NCBI36
Build 342199,959,729 - 200,150,707NCBI
Celera2193,889,754 - 194,091,258 (-)NCBICelera
Cytogenetic Map2q33.1NCBI
HuRef2191,986,953 - 192,188,680 (-)NCBIHuRef
CHM1_12200,140,433 - 200,341,932 (-)NCBICHM1_1
T2T-CHM13v2.02199,753,552 - 199,955,035 (-)NCBIT2T-CHM13v2.0
Satb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8965,842,351 - 66,028,569 (-)NCBIGRCr8
mRatBN7.2958,348,027 - 58,534,256 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl958,350,246 - 58,530,707 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx966,851,232 - 67,028,002 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0971,967,156 - 72,143,935 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0970,285,214 - 70,461,986 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0963,456,877 - 63,642,193 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl963,456,783 - 63,641,400 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0963,262,569 - 63,445,219 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4955,647,221 - 55,824,683 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera955,813,347 - 55,988,972 (-)NCBICelera
Cytogenetic Map9q31NCBI
Satb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554031,663,676 - 1,811,109 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554031,663,676 - 1,811,088 (+)NCBIChiLan1.0ChiLan1.0
SATB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213101,887,491 - 102,083,405 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B101,902,495 - 102,098,402 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B86,518,043 - 86,720,212 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B204,408,681 - 204,603,286 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B204,406,887 - 204,599,539 (-)Ensemblpanpan1.1panPan2
SATB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1378,548,295 - 8,837,416 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl378,551,017 - 8,731,149 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha379,435,262 - 9,724,366 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0378,446,518 - 8,736,073 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl378,446,544 - 8,629,216 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1378,437,231 - 8,726,605 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0378,409,230 - 8,698,299 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0378,428,358 - 8,717,903 (-)NCBIUU_Cfam_GSD_1.0
Satb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303156,631,640 - 156,803,110 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650634,962 - 206,490 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650634,968 - 206,432 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SATB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15102,964,417 - 103,158,232 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115102,962,635 - 103,172,224 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215114,023,917 - 114,065,366 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SATB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11084,761,450 - 84,954,339 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1084,761,426 - 84,954,361 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040114,497,881 - 114,689,237 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Satb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248891,321,345 - 1,466,319 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248891,321,323 - 1,466,368 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Satb2
5168 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:3668
Count of miRNA genes:720
Interacting mature miRNAs:986
Transcripts:ENSMUST00000042857, ENSMUST00000114415, ENSMUST00000176759, ENSMUST00000177282, ENSMUST00000177424
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
11039528Ccc3_mcolitis susceptibility in the Collaborative Cross 3 (mouse)13680142195051546Mouse
1357524W6q14_mweight 6 weeks QTL 14 (mouse)Not determined13476013873976915Mouse
12910788Pwgrq9_mpost-weaning growth rate QTL 9 (mouse)14086800867270256Mouse
1301714Vertcling_mvertical clinging (mouse)Not determined14293803176938167Mouse
18182931Metl1_mmetabolite locus 1, pyridoxate (mouse)14127539975275399Mouse
4141305Tgq9_mtriglyceride QTL 9 (mouse)Not determined5142160585421605Mouse
1357651Lgq5_mlate growth QTL 5 (mouse)Not determined13476013873976915Mouse
12910786Pwgrq10_mpost-weaning growth rate QTL 10 (mouse)14086800867270256Mouse
11100001Col4a1m1_mcollagen, type IV, alpha 1 modifier 1 (mouse)12555019162946882Mouse
1301211Bbaa11_mB.burgdorferi-associated arthritis 11 (mouse)Not determined14888900682889210Mouse
1301722Cia9_mcollagen induced arthritis QTL 9 (mouse)Not determined145783900189303617Mouse
13824984Twq5_mtestis weight QTL 5 (mouse)13069992184732197Mouse
1357721Sle17_msystematic lupus erythematosus susceptibility 17 (mouse)Not determined139132808126445310Mouse
1558855Eae30_mexperimental allergic encephalomyelitis susceptibility 30 (mouse)Not determined14541777372975057Mouse
1301954Lrnx11_mlearning-contextual 11 (mouse)Not determined13913280874516365Mouse
1357824Estoq4_membryo survival total QTL 4 (mouse)Not determined13476013873976915Mouse
1357505Vtbt1_mvertebral trabecular bone trait 1 (mouse)Not determined15626621490266360Mouse
1357506W10q6_mweight 10 weeks QTL 6 (mouse)Not determined13476013873976915Mouse
4141032Wbcc1_mwhite blood cell count 1 (mouse)Not determined4225966776259667Mouse
39128207Lwq16_mliver weight QTL 16 (mouse)13476013873976915Mouse
1558860W10q7_mweight 10 weeks QTL 7 (mouse)Not determined134760138150193871Mouse
4142307Shali1_msurvival time to hyperoxic acute lung injury 1 (mouse)Not determined5196402570406589Mouse
12880409V125Dq1_mvitamin D active form serum level QTL 1 (mouse)12603916060039160Mouse
4142433Hbnr1_mHeligmosomoides bakeri nematode resistance 1 (mouse)Not determined2555019158273271Mouse
1301616Yaa2_mY-linked autoimmune acceleration 2 (mouse)Not determined14685469080854839Mouse
1357488Splq3_mspleen weight QTL 3 (mouse)Not determined134760138150193871Mouse
10043965Obq24_mobesity QTL 24 (mouse)Not determined15089021684890216Mouse
1301430Cdcs2_mcytokine deficiency colitis susceptibility 2 (mouse)Not determined14889234582892485Mouse
12879917Shm3_msperm head morphology 3 (mouse)14418690462946882Mouse
1558717Ses1a_msalmonella enteritidis susceptibility 1a (mouse)Not determined15672692290727077Mouse
1357759W3q12_mweight 3 weeks QTL 12 (mouse)Not determined13476013873976915Mouse
4142291Aec2_mautoimmune exocrinopathy 2 (mouse)Not determined52457737182250592Mouse
1357753Kidq2_mkidney weight QTL 2 (mouse)Not determined134760138150193871Mouse
1558905Gct7_mgranulosa cell tumorigenesis 7 (mouse)Not determined14734989481350013Mouse
1558822Vas1_mautoimmune vasitis resistance 1 (mouse)Not determined14888900682889210Mouse
1301670Ssta1_msusceptibility to Salmonella typhimurium antigens 1 (mouse)Not determined14594675579946882Mouse
1357475w3q13_mweight 3 weeks QTL 13 (mouse)Not determined12310959173976915Mouse
12910780Pwgrq11_mpost-weaning growth rate QTL 11 (mouse)14086800867270256Mouse
1357741Nidd5k_mNidd5 on KK-A<y> (mouse)Not determined15597494889975057Mouse
1301225Sle7_msystematic lupus erythematosus susceptibility 7 (mouse)Not determined14685469080854839Mouse
4142467Wbcq1_mwhite blood cell quantitative locus 1 (mouse)Not determined15626621490266360Mouse
1301166Thypr2_mthymocyte proliferative response 2 (mouse)Not determined14127312475273271Mouse
1301933Insq6_minsulin QTL 6 (mouse)Not determined15672692290727077Mouse

Markers in Region
41.MMHAP57FLF5.seq  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38156,835,064 - 56,835,238UniSTSGRCm38
MGSCv37156,891,908 - 56,892,082UniSTSGRCm37
Celera157,350,492 - 57,350,666UniSTS
Cytogenetic Map1C1.3UniSTS
Whitehead_YAC1 UniSTS
RH143932  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38156,971,773 - 56,971,895UniSTSGRCm38
MGSCv37157,028,617 - 57,028,739UniSTSGRCm37
Celera157,487,382 - 57,487,504UniSTS
Cytogenetic Map1C1.3UniSTS
Satb2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv37156,925,140 - 56,925,263UniSTSGRCm37
MGSCv37157,031,834 - 57,031,909UniSTSGRCm37
MGSCv37156,851,298 - 56,851,668UniSTSGRCm37
MGSCv37156,851,142 - 56,851,222UniSTSGRCm37
Celera157,309,869 - 57,310,239UniSTS
Celera157,384,025 - 57,384,148UniSTS
Celera157,309,713 - 57,309,793UniSTS
Celera157,490,651 - 57,490,726UniSTS
Cytogenetic Map1C1.3UniSTS
cM Map1 UniSTS
Satb2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38156,794,454 - 56,794,824UniSTSGRCm38
MGSCv37156,851,298 - 56,851,668UniSTSGRCm37
Celera157,309,869 - 57,310,239UniSTS
Cytogenetic Map1C1.3UniSTS
cM Map1 UniSTS
Satb2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38156,868,296 - 56,868,419UniSTSGRCm38
MGSCv37156,925,140 - 56,925,263UniSTSGRCm37
Celera157,384,025 - 57,384,148UniSTS
Cytogenetic Map1C1.3UniSTS
Satb2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38156,794,298 - 56,794,378UniSTSGRCm38
MGSCv37156,851,142 - 56,851,222UniSTSGRCm37
Celera157,309,713 - 57,309,793UniSTS
Cytogenetic Map1C1.3UniSTS
Satb2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38156,974,990 - 56,975,065UniSTSGRCm38
MGSCv37157,031,834 - 57,031,909UniSTSGRCm37
Celera157,490,651 - 57,490,726UniSTS
Cytogenetic Map1C1.3UniSTS


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001358580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001358581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001420844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001420845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_139146 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006495827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030252735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC101777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC131072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF319623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ606045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK035129 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK129270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC026632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY384826 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000042857   ⟹   ENSMUSP00000046067
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl156,833,140 - 57,011,661 (-)Ensembl
GRCm38.p6 Ensembl156,793,981 - 56,972,502 (-)Ensembl
Ensembl Acc Id: ENSMUST00000114415   ⟹   ENSMUSP00000110057
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl156,833,145 - 57,011,017 (-)Ensembl
GRCm38.p6 Ensembl156,793,986 - 56,971,858 (-)Ensembl
Ensembl Acc Id: ENSMUST00000176759   ⟹   ENSMUSP00000135163
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl156,987,293 - 57,008,999 (-)Ensembl
GRCm38.p6 Ensembl156,948,134 - 56,969,840 (-)Ensembl
Ensembl Acc Id: ENSMUST00000177282   ⟹   ENSMUSP00000135542
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl157,008,899 - 57,017,809 (-)Ensembl
GRCm38.p6 Ensembl156,969,740 - 56,978,650 (-)Ensembl
Ensembl Acc Id: ENSMUST00000177424   ⟹   ENSMUSP00000135391
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl156,833,147 - 57,009,031 (-)Ensembl
GRCm38.p6 Ensembl156,793,988 - 56,969,872 (-)Ensembl
RefSeq Acc Id: NM_001358580   ⟹   NP_001345509
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,145 - 57,019,350 (-)NCBI
GRCm38156,793,981 - 56,980,248 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001358581   ⟹   NP_001345510
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,145 - 57,017,678 (-)NCBI
GRCm38156,793,981 - 56,978,650 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001420844   ⟹   NP_001407773
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,145 - 57,010,450 (-)NCBI
RefSeq Acc Id: NM_001420845   ⟹   NP_001407774
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,145 - 57,013,678 (-)NCBI
RefSeq Acc Id: NM_139146   ⟹   NP_631885
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,145 - 57,010,450 (-)NCBI
GRCm38156,793,981 - 56,971,334 (-)NCBI
MGSCv37156,850,825 - 57,028,178 (-)RGD
Celera157,309,396 - 57,486,902 (-)RGD
cM Map1 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006495827   ⟹   XP_006495890
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,149 - 57,017,812 (-)NCBI
GRCm38156,793,992 - 56,978,654 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030252735   ⟹   XP_030108595
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,149 - 57,014,285 (-)NCBI
GRCm38156,793,992 - 56,981,190 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036163326   ⟹   XP_036019219
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39156,833,149 - 57,017,810 (-)NCBI
Sequence:
RefSeq Acc Id: NP_631885   ⟸   NM_139146
- Peptide Label: isoform 1
- UniProtKB: Q8VI24 (UniProtKB/Swiss-Prot),   Q546B3 (UniProtKB/TrEMBL),   H3BKH3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006495890   ⟸   XM_006495827
- Peptide Label: isoform X1
- UniProtKB: H3BKH3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001345509   ⟸   NM_001358580
- Peptide Label: isoform 1
- UniProtKB: Q8VI24 (UniProtKB/Swiss-Prot),   Q546B3 (UniProtKB/TrEMBL),   H3BKH3 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001345510   ⟸   NM_001358581
- Peptide Label: isoform 1
- UniProtKB: Q8VI24 (UniProtKB/Swiss-Prot),   Q546B3 (UniProtKB/TrEMBL),   H3BKH3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_030108595   ⟸   XM_030252735
- Peptide Label: isoform X1
- UniProtKB: H3BKH3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSMUSP00000135542   ⟸   ENSMUST00000177282
Ensembl Acc Id: ENSMUSP00000135391   ⟸   ENSMUST00000177424
Ensembl Acc Id: ENSMUSP00000046067   ⟸   ENSMUST00000042857
Ensembl Acc Id: ENSMUSP00000110057   ⟸   ENSMUST00000114415
Ensembl Acc Id: ENSMUSP00000135163   ⟸   ENSMUST00000176759
RefSeq Acc Id: XP_036019219   ⟸   XM_036163326
- Peptide Label: isoform X2
- UniProtKB: H3BKH3 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001407774   ⟸   NM_001420845
- Peptide Label: isoform 1
- UniProtKB: Q8VI24 (UniProtKB/Swiss-Prot),   H3BKH3 (UniProtKB/TrEMBL),   Q546B3 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001407773   ⟸   NM_001420844
- Peptide Label: isoform 2
- UniProtKB: H3BKH3 (UniProtKB/TrEMBL)
Protein Domains
CUT   CUTL   Homeobox   ULD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8VI24-F1-model_v2 AlphaFold Q8VI24 1-733 view protein structure

Promoters
RGD ID:6873748
Promoter ID:EPDNEW_M325
Type:multiple initiation site
Name:Satb2_2
Description:Mus musculus special AT-rich sequence binding protein 2 , transcriptvariant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M326  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38156,969,840 - 56,969,900EPDNEW
RGD ID:6873750
Promoter ID:EPDNEW_M326
Type:initiation region
Name:Satb2_1
Description:Mus musculus special AT-rich sequence binding protein 2 , transcriptvariant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M325  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38156,971,291 - 56,971,351EPDNEW
RGD ID:6818428
Promoter ID:MM_KWN:794
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day4,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell,   MEF_B4
Transcripts:OTTMUST00000055482,   OTTMUST00000055483
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36157,028,926 - 57,029,426 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2679336 AgrOrtholog
Ensembl Genes ENSMUSG00000038331 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000042857.14 UniProtKB/Swiss-Prot
  ENSMUST00000114415 ENTREZGENE
  ENSMUST00000114415.10 UniProtKB/Swiss-Prot
  ENSMUST00000176759.2 UniProtKB/TrEMBL
  ENSMUST00000177282.2 UniProtKB/TrEMBL
  ENSMUST00000177424.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.260.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.10.260.70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.10.20.710 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CUT_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CUTL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lambda_DNA-bd_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SATB1/SATB2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SATB_CUTL_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SATB_ULD_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ULD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:212712 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:2679336 ENTREZGENE
NCBI Gene 212712 ENTREZGENE
PANTHER DNA-BINDING PROTEIN SATB2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR15116 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CUT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CUTL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeodomain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ULD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Satb2 PhenoGen
PROSITE CUT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CUTL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ULD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CUT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF47413 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt H3BJX4_MOUSE UniProtKB/TrEMBL
  H3BKH3 ENTREZGENE, UniProtKB/TrEMBL
  H3BKV4_MOUSE UniProtKB/TrEMBL
  Q546B3 ENTREZGENE, UniProtKB/TrEMBL
  Q8VI24 ENTREZGENE, UniProtKB/Swiss-Prot