Arid1a (AT rich interactive domain 1A (SWI-like)) - Rat Genome Database

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Gene: Arid1a (AT rich interactive domain 1A (SWI-like)) Mus musculus
Analyze
Symbol: Arid1a
Name: AT rich interactive domain 1A (SWI-like)
RGD ID: 1321438
MGI Page MGI
Description: Enables ATP-dependent chromatin remodeler activity. Contributes to nucleosome binding activity. Acts upstream of or within several processes, including animal organ development; embryonic morphogenesis; and negative regulation of transcription, DNA-templated. Located in chromatin. Part of SWI/SNF complex; nBAF complex; and npBAF complex. Is expressed in several structures, including alimentary system; brain; genitourinary system; limb; and sensory organ. Used to study Coffin-Siris syndrome. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 2; breast cancer; carcinoma (multiple); gastrointestinal system cancer (multiple); and neuroblastoma. Orthologous to human ARID1A (AT-rich interaction domain 1A); PARTICIPATES IN altered SWI/SNF family mediated chromatin remodeling pathway; pancreatic cancer pathway; SWI/SNF family mediated chromatin remodeling pathway; INTERACTS WITH (S)-nicotine; 1,2-dichloroethane; 1,2-dimethylhydrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 1110030E03Rik; ARID domain-containing protein 1A; AT rich interactive domain 1A (Swi1 like); AT-rich interactive domain-containing protein 1A; BAF25; BAF250; BAF250a; BRG1-associated factor 250; BRG1-associated factor 250a; O; osa homolog 1; Osa1; Smar; Smarcf1; SWI-like protein; SWI-SNF complex protein p270; SWI/SNF complex protein p270; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily f, member 1; SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin subfamily F member 1; Swi1 like
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Gm8134  
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394133,406,319 - 133,484,682 (-)NCBIGRCm39mm39
GRCm39 Ensembl4133,406,319 - 133,484,080 (-)Ensembl
GRCm384133,679,008 - 133,756,769 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4133,679,008 - 133,756,769 (-)EnsemblGRCm38mm10GRCm38
MGSCv374133,234,923 - 133,309,526 (-)NCBIGRCm37mm9NCBIm37
MGSCv364132,951,084 - 133,029,633 (-)NCBImm8
Celera4131,854,780 - 131,931,113 (-)NCBICelera
Cytogenetic Map4D2.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Hepatitis  (IMP)
adenocarcinoma  (ISO)
adenoid cystic carcinoma  (ISO)
breast cancer  (ISO)
Breast Neoplasms  (ISO)
Burkitt lymphoma  (ISO)
cerebellar hypoplasia  (ISO)
cholangiocarcinoma  (ISO)
Coffin-Siris syndrome  (IEA,ISO)
Coffin-Siris syndrome 1  (ISO)
Coffin-Siris syndrome 2  (ISO)
colon adenocarcinoma  (ISO)
colon cancer  (ISO)
colorectal cancer  (ISO)
colorectal carcinoma  (ISO)
Colorectal Neoplasms  (ISO)
cutaneous T cell lymphoma  (ISO)
embryonal rhabdomyosarcoma  (ISO)
endometrial adenocarcinoma  (ISO)
endometrial cancer  (ISO)
Endometrial Neoplasms  (ISO)
epilepsy  (ISO)
esophagus adenocarcinoma  (ISO)
Experimental Liver Neoplasms  (IMP)
gastric adenocarcinoma  (ISO)
genetic disease  (ISO)
hepatoblastoma  (ISO)
hepatocellular carcinoma  (IMP,ISO)
Hydrops Fetalis  (ISO)
intellectual disability  (ISO)
intrahepatic cholangiocarcinoma  (ISO)
Klatskin's tumor  (ISO)
lung non-small cell carcinoma  (ISO)
lung squamous cell carcinoma  (ISO)
Marfanoid Mental Retardation Syndrome, Autosomal  (ISO)
medulloblastoma  (ISO)
Microsatellite Instability  (ISO)
nasopharynx carcinoma  (ISO)
Neoplasm Metastasis  (IMP)
nephroblastoma  (ISO)
neuroblastoma  (ISO)
Neurodevelopmental Disorders  (ISO)
non-functioning pancreatic endocrine tumor  (ISO)
ovarian clear cell carcinoma  (ISO)
ovary serous adenocarcinoma  (ISO)
pancreatic cancer  (ISO)
Prostatic Neoplasms  (ISO)
Sezary's disease  (ISO)
small intestine carcinoma  (ISO)
stomach cancer  (ISO)
stomach carcinoma  (ISO)
Stomach Neoplasms  (ISO)
T-Cell Lymphoma  (ISO)
transitional cell carcinoma  (ISO)
urinary bladder cancer  (ISO)
visual epilepsy  (ISO)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal aortic valve morphology  (IAGP)
abnormal blood vessel morphology  (IAGP)
abnormal body composition  (IAGP)
abnormal cardiac neural crest cell migration  (IAGP)
abnormal cardiac neural crest cell morphology  (IAGP)
abnormal cardiac outflow tract development  (IAGP)
abnormal conotruncus septation  (IAGP)
abnormal cranium morphology  (IAGP)
abnormal eye distance/ position  (IAGP)
abnormal first pharyngeal arch morphology  (IAGP)
abnormal fourth pharyngeal arch artery morphology  (IAGP)
abnormal hematopoietic system physiology  (IAGP)
abnormal interventricular septum morphology  (IAGP)
abnormal neural crest cell migration  (IAGP)
abnormal neurocranium morphology  (IAGP)
abnormal optic cup morphology  (IAGP)
abnormal ovary morphology  (IAGP)
abnormal palatine bone morphology  (IAGP)
abnormal placenta morphology  (IAGP)
abnormal pluripotent precursor cell morphology  (IAGP)
abnormal pulmonary valve morphology  (IAGP)
abnormal sixth pharyngeal arch artery morphology  (IAGP)
abnormal third pharyngeal arch artery morphology  (IAGP)
abnormal vascular development  (IAGP)
abnormal visceral yolk sac morphology  (IAGP)
absent fetal ductus arteriosus  (IAGP)
absent heartbeat  (IAGP)
absent mesoderm  (IAGP)
absent myocardial trabeculae  (IAGP)
decreased embryo size  (IAGP)
decreased heart rate  (IAGP)
embryonic growth arrest  (IAGP)
embryonic lethality between implantation and somite formation, complete penetrance  (IAGP)
embryonic lethality during organogenesis, complete penetrance  (IAGP)
enophthalmos  (IAGP)
failure to gastrulate  (IAGP)
forebrain hypoplasia  (IAGP)
hemorrhage  (IAGP)
hemorrhagic ascites  (IAGP)
increased hematopoietic stem cell number  (IAGP)
increased interleukin-6 secretion  (IAGP)
increased metastatic potential  (IAGP)
increased ovarian carcinoma incidence  (IAGP)
increased ovary tumor incidence  (IAGP)
increased spongiotrophoblast size  (IAGP)
lethality throughout fetal growth and development, incomplete penetrance  (IAGP)
lowered ear position  (IAGP)
microcephaly  (IAGP)
neonatal lethality, complete penetrance  (IAGP)
open neural tube  (IAGP)
pale yolk sac  (IAGP)
pericardial effusion  (IAGP)
persistent truncus arteriosis  (IAGP)
short premaxilla  (IAGP)
short snout  (IAGP)
small placenta  (IAGP)
small temporal bone squamous part  (IAGP)
ventricular septal defect  (IAGP)
References

References - curated
1. Bi C, etal., BMC Cancer. 2019 Mar 8;19(1):213. doi: 10.1186/s12885-019-5429-3.
2. Fang JZ, etal., PLoS One. 2015 Nov 16;10(11):e0143042. doi: 10.1371/journal.pone.0143042. eCollection 2015.
3. Feng F, etal., Int J Clin Oncol. 2021 Apr;26(4):717-727. doi: 10.1007/s10147-020-01846-z. Epub 2021 Jan 2.
4. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
5. Guan B, etal., Cancer Res. 2011 Nov 1;71(21):6718-27. doi: 10.1158/0008-5472.CAN-11-1562. Epub 2011 Sep 7.
6. Hargreaves DC and Crabtree GR, Cell Res. 2011 Mar;21(3):396-420. doi: 10.1038/cr.2011.32. Epub 2011 Mar 1.
7. He F, etal., J Exp Clin Cancer Res. 2015 May 15;34:47. doi: 10.1186/s13046-015-0164-3.
8. Hu C, etal., J Hepatol. 2018 Mar;68(3):465-475. doi: 10.1016/j.jhep.2017.10.028. Epub 2017 Nov 4.
9. Inada R, etal., World J Gastroenterol. 2015 Feb 21;21(7):2159-68. doi: 10.3748/wjg.v21.i7.2159.
10. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
11. Kishida Y, etal., Am J Clin Pathol. 2019 Sep 9;152(4):463-470. doi: 10.1093/ajcp/aqz062.
12. MGD data from the GO Consortium
13. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
14. OMIM Disease Annotation Pipeline
15. Qadir J, etal., Pathol Oncol Res. 2020 Oct;26(4):2237-2246. doi: 10.1007/s12253-020-00815-1. Epub 2020 May 6.
16. RGD automated import pipeline
17. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. RGD automated import pipeline for gene-chemical interactions
19. Saito M, etal., Hum Pathol. 2020 Jul;101:80-81. doi: 10.1016/j.humpath.2020.04.009. Epub 2020 May 7.
20. Sausen M, etal., Nat Genet. 2013 Jan;45(1):12-7. doi: 10.1038/ng.2493. Epub 2012 Dec 2.
21. Schallenberg S, etal., BMC Cancer. 2020 Jan 6;20(1):12. doi: 10.1186/s12885-019-6425-3.
22. Shain AH and Pollack JR, PLoS One. 2013;8(1):e55119. doi: 10.1371/journal.pone.0055119. Epub 2013 Jan 23.
23. Shen J, etal., Cancer Discov. 2015 Jul;5(7):752-67. doi: 10.1158/2159-8290.CD-14-0849. Epub 2015 Jun 11.
24. Sun D, etal., Mol Med. 2020 Aug 13;26(1):78. doi: 10.1186/s10020-020-00208-9.
25. Sun X, etal., Cancer Cell. 2017 Nov 13;32(5):574-589.e6. doi: 10.1016/j.ccell.2017.10.007.
26. Wang DD, etal., PLoS One. 2012;7(7):e40364. doi: 10.1371/journal.pone.0040364. Epub 2012 Jul 13.
27. Wei XL, etal., World J Gastroenterol. 2014 Dec 28;20(48):18404-12. doi: 10.3748/wjg.v20.i48.18404.
28. Yang F, etal., Cell Death Dis. 2018 Jan 9;9(1):12. doi: 10.1038/s41419-017-0020-9.
29. Yang SZ, etal., World J Gastroenterol. 2016 Jul 7;22(25):5814-21. doi: 10.3748/wjg.v22.i25.5814.
30. Yang Y, etal., Cancer Manag Res. 2019 May 29;11:4931-4946. doi: 10.2147/CMAR.S207329. eCollection 2019.
31. Yoshino J, etal., Carcinogenesis. 2020 Jul 10;41(6):734-742. doi: 10.1093/carcin/bgz179.
32. Zhang Q, etal., Oncotarget. 2016 Jul 19;7(29):46127-46141. doi: 10.18632/oncotarget.10060.
33. Zhang X, etal., Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi. 2017 Jan;33(1):77-80.
34. Zhang Y, etal., Tumour Biol. 2014 Jun;35(6):5701-7. doi: 10.1007/s13277-014-1755-x. Epub 2014 Feb 26.
35. Zhao J, etal., Pathol Oncol Res. 2016 Jul;22(3):453-9. doi: 10.1007/s12253-015-0022-9. Epub 2015 Nov 20.
36. Zhou H, etal., Mol Med Rep. 2019 Mar;19(3):2125-2136. doi: 10.3892/mmr.2019.9886. Epub 2019 Jan 22.
37. Zhu YP, etal., Hum Pathol. 2018 Aug;78:28-35. doi: 10.1016/j.humpath.2018.04.003. Epub 2018 Apr 22.
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10512203   PMID:11042159   PMID:11076861   PMID:11318604   PMID:11988099   PMID:12368262   PMID:12477932   PMID:12520002   PMID:12904583   PMID:14610273  
PMID:14681479   PMID:15840001   PMID:15922553   PMID:16141072   PMID:16141073   PMID:16230384   PMID:16287714   PMID:16959763   PMID:17015433   PMID:17255939   PMID:17363140   PMID:17640523  
PMID:18287559   PMID:18448678   PMID:18799693   PMID:19279220   PMID:20362541   PMID:20412781   PMID:20522713   PMID:21267068   PMID:21647563   PMID:21677750   PMID:21873635   PMID:22083510  
PMID:22621927   PMID:22922362   PMID:22988430   PMID:23129809   PMID:23540691   PMID:23698369   PMID:23716698   PMID:23785148   PMID:23892456   PMID:23937658   PMID:24335282   PMID:24899687  
PMID:25145359   PMID:25625625   PMID:25737280   PMID:25859222   PMID:26070559   PMID:26279473   PMID:26365490   PMID:26378916   PMID:26806701   PMID:26962117   PMID:26986003   PMID:27044474  
PMID:27280691   PMID:27681437   PMID:27941798   PMID:28202515   PMID:28262751   PMID:28589939   PMID:28737768   PMID:29289536   PMID:29590609   PMID:29604291   PMID:30014851   PMID:30037996  
PMID:30297712   PMID:30401838   PMID:30457570   PMID:30550785   PMID:30584660   PMID:30635419   PMID:30858552   PMID:30879920   PMID:31077711   PMID:31162944   PMID:31259687   PMID:31271748  
PMID:31391455   PMID:31492885   PMID:32027624   PMID:32133736   PMID:32215983   PMID:32325033   PMID:32464345   PMID:32483112   PMID:32541003   PMID:32640256   PMID:32747500   PMID:32878261  
PMID:33075803   PMID:33084574   PMID:33222288   PMID:33706098   PMID:34011608  


Genomics

Comparative Map Data
Arid1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394133,406,319 - 133,484,682 (-)NCBIGRCm39mm39
GRCm39 Ensembl4133,406,319 - 133,484,080 (-)Ensembl
GRCm384133,679,008 - 133,756,769 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4133,679,008 - 133,756,769 (-)EnsemblGRCm38mm10GRCm38
MGSCv374133,234,923 - 133,309,526 (-)NCBIGRCm37mm9NCBIm37
MGSCv364132,951,084 - 133,029,633 (-)NCBImm8
Celera4131,854,780 - 131,931,113 (-)NCBICelera
Cytogenetic Map4D2.3NCBI
ARID1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl126,693,236 - 26,782,104 (+)EnsemblGRCh38hg38GRCh38
GRCh38126,696,015 - 26,782,104 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37127,022,506 - 27,108,595 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,895,109 - 26,981,188 (+)NCBINCBI36hg18NCBI36
Build 34126,706,666 - 26,792,737NCBI
Celera125,419,777 - 25,505,606 (+)NCBI
Cytogenetic Map1p36.11NCBI
HuRef125,309,350 - 25,361,809 (+)NCBIHuRef
CHM1_1127,135,825 - 27,221,852 (+)NCBICHM1_1
Arid1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25145,908,181 - 145,981,609 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl5151,904,684 - 151,977,636 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05151,904,687 - 151,977,973 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05155,592,617 - 155,665,889 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45151,355,617 - 151,398,647 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15151,335,330 - 151,408,688 (+)NCBI
Celera5144,329,185 - 144,372,216 (-)NCBICelera
Cytogenetic Map5q36NCBI
Arid1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554526,068,631 - 6,120,759 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554526,068,631 - 6,120,759 (+)NCBIChiLan1.0ChiLan1.0
ARID1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1127,019,596 - 27,103,239 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl127,018,616 - 27,103,239 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0125,960,868 - 26,047,057 (+)NCBIMhudiblu_PPA_v0panPan3
ARID1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1273,331,606 - 73,401,151 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl273,324,852 - 73,401,102 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha269,909,026 - 69,978,542 (-)NCBI
ROS_Cfam_1.0273,894,794 - 73,964,327 (-)NCBI
UMICH_Zoey_3.1270,719,680 - 70,789,191 (-)NCBI
UNSW_CanFamBas_1.0271,725,226 - 71,794,735 (-)NCBI
UU_Cfam_GSD_1.0272,728,646 - 72,798,165 (-)NCBI
Arid1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505845,325,365 - 45,372,530 (+)NCBI
SpeTri2.0NW_00493647411,148,857 - 11,197,312 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARID1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl684,049,365 - 84,123,384 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1684,049,729 - 84,124,302 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2677,607,507 - 77,623,800 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ARID1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120105,981,549 - 106,066,093 (-)NCBI
ChlSab1.1 Ensembl20105,981,290 - 106,065,672 (-)Ensembl
Vero_WHO_p1.0NW_02366603310,365,063 - 10,448,898 (+)NCBI
Arid1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476410,672,673 - 10,759,634 (+)NCBI

Position Markers
Smarcf1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map4D3UniSTS
cM Map4 UniSTS
AA818481  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm384133,679,711 - 133,679,923UniSTSGRCm38
MGSCv374133,235,626 - 133,235,838UniSTSGRCm37
Celera4131,855,483 - 131,855,695UniSTS
Cytogenetic Map4D3UniSTS
MARC_6181-6182:992006984:1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv374133,235,939 - 133,236,333UniSTSGRCm37
MGSCv371488,036,795 - 88,037,186UniSTSGRCm37
Celera1485,171,448 - 85,171,839UniSTS
Celera4131,855,796 - 131,856,190UniSTS
MARC_11851-11852:1029349291:1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm384133,680,793 - 133,681,193UniSTSGRCm38
GRCm381623,093,665 - 23,094,050UniSTSGRCm38
MGSCv371623,093,738 - 23,094,123UniSTSGRCm37
MGSCv374133,236,708 - 133,237,108UniSTSGRCm37
Celera1623,652,680 - 23,653,065UniSTS
Celera4131,856,565 - 131,856,965UniSTS
Cytogenetic Map4D3UniSTS
Cytogenetic Map16B1UniSTS
Arid1a  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map4D3UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142082Psds2_mpsoriasis-like skin disease severity 2 (mouse)Not determined4133427367137890684Mouse
14746982Manh56_mmandible shape 56 (mouse)4118088606152088606Mouse
15039382Ltgq7_mliver triglyceride QTL 7 (mouse)4105812001139812001Mouse
15039377Bw45_mbody weight QTL 45 (mouse)4105812001139812001Mouse
10043985Stheal12_msoft tissue heal 12 (mouse)Not determined4121615338155615442Mouse
1301823Bmd7_mbone mineral density 7 (mouse)Not determined489063832151570093Mouse
12910808Pwbwq9_mpost-weaning body weight QTL 9 (mouse)4105978113141706527Mouse
10047132Albq19_malbuminuria QTL 19 (mouse)Not determined4112930596146930596Mouse
4142077Ignpq2_mIgA nephropathy QTL 2 (mouse)Not determined4133592276156508116Mouse
4142493Femwf13_mfemur work to failure 13 (mouse)Not determined116427367150427471Mouse
13208562Wght7_mweight 7 (mouse)491000000148000000Mouse
15039378Adip30_madiposity 30 (mouse)4105812001139812001Mouse
1300839Dyscalc2_mdystrophic cardiac calcinosis 2 (mouse)Not determined4111115258145115487Mouse
4142061Chlq16_mcirculating hormone level QTL 16 (mouse)Not determined4121615338155615442Mouse
4141001Tgq17_mtriglyceride QTL 17 (mouse)Not determined112629696146629696Mouse
4142139Adip12_madiposity 12 (mouse)Not determined4124893970156508116Mouse
4141093W3q17_mweight 3 weeks QTL 17 (mouse)Not determined89063832140740892Mouse
1301584Lrdg2_mlight induced retinal degeneration 2 (mouse)Not determined4129572018151570093Mouse
26884437Sklq13_mskull length QTL 13, 16 week (mouse)457700000155600000Mouse
1300803Sluc6_msusceptibility to lung cancer 6 (mouse)Not determined4120946694154946840Mouse
10412210Cypr6_mcytokine production 6 (mouse)Not determined4120890537154890684Mouse
15039385Mvlq3_mmacrovesicular liver lesion QTL 3 (mouse)4112288593146288593Mouse
26884445Sklq7_mskull length QTL 7, 10 week (mouse)468100000150800000Mouse
1301267Bcmd2_mB cell maturation defect 2 (mouse)Not determined4133427367150704994Mouse
1300743Skull6_mskull morphology 6 (mouse)Not determined4111115258145115487Mouse
10755531Lymph3_mlymphocyte differential 3 (mouse)4124826172156508116Mouse
1301106Skts7_mskin tumor susceptibility 7 (mouse)Not determined4100214774134215009Mouse
10755522Hgb1_mhemoglobin 1 (mouse)4108583899142583899Mouse
1301793Tlsr3_mthymic lymphoma suppressor region 3 (mouse)Not determined4129572018137137225Mouse
1357800Tgq3_mtriglyceride QTL 3 (mouse)Not determined4107161300141161387Mouse
11533916Mts1_mmammary tumor susceptibility 1 (mouse)4125562755156508116Mouse
10755520Rbc1_mred blood cell count 1 (mouse)4108583899142583899Mouse
4141549W10q10_mweight 10 weeks QTL 10 (mouse)Not determined89063832140740892Mouse
12904009Cfq9_mconditioned fear QTL 9 (mouse)4130142494134045411Mouse
4142481Gct1_mgranulosa cell tumorigenesis 1 (mouse)Not determined4128057656156508116Mouse
1301847Fecq2_mfecundity QTL 2 (mouse)Not determined4100214774134215009Mouse
1300933Cdcs9_mcytokine deficiency colitis susceptibility 9 (mouse)Not determined4125504302156508116Mouse
1357895Ctrcts_mcataract severity (mouse)Not determined445709925138615442Mouse
4141180Ssic1_msusceptibility to small intestinal cancer 1 (mouse)Not determined120946694154946840Mouse
25394567Skmw55_mskeletal muscle weight 55, gastroc (mouse)4131710493133983265Mouse
14696808Rbcn1_mrod bipolar cell number 1 (mouse)4132220000134320000Mouse
10045620Heal22_mwound healing/regeneration 22 (mouse)Not determined4125504302156508116Mouse
1301982Pltiq1_mphospholipid transfer protein inducibility QTL 1 (mouse)Not determined4124893970156508116Mouse
1300621Tpnr1_mthermal pain response 1 (mouse)Not determined4125504302156508116Mouse
4141154Nba1_mNew Zealand Black autoimmunity 1 (mouse)Not determined131923413141151964Mouse
1357529Lvrq8_mliver weight QTL 8 (mouse)Not determined489063832140740892Mouse
1300874Gasa2_mgastritis type A susceptibility locus 2 (mouse)Not determined4132926037156508116Mouse
13503348Bntq18_mbone traits QTL 18 (mouse)4120890537154890684Mouse
25314312Syncl2_msynaptonemal complex length 2 (mouse)465800000146500000Mouse
4141623W6q13_mweight 6 weeks QTL 13 (mouse)Not determined89063832140740892Mouse
1301815Sles2_msystemic lupus erythmatosus suppressor 2 (mouse)Not determined495069342150592401Mouse
1300781Lith8_mlithogenic gene 8 (mouse)Not determined4107371164141371360Mouse
1302149Tlsr2_mthymic lymphoma suppressor region 2 (mouse)Not determined4124371164142504390Mouse
1300858Tafat_mtally ho associated mesenteric fat pad weight (mouse)Not determined4124893970156508116Mouse
12910813Pwbwq4_mpre-weaning body weight QTL 4 (mouse)4105978113141706527Mouse
1301382Arvm2_mautoimmune renal vasculitis 2 (mouse)Not determined4107897771141897963Mouse
1300663Start2_mstartle response 2 (mouse)Not determined4107371164141371360Mouse
1302102Bis1_mbeta-carboline-induced seizures 1 (mouse)Not determined4120137122154137225Mouse
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156183778Mouse
12910797Pwgrq4_mpre-weaning growth rate QTL 4 (mouse)4105978113141706527Mouse
1301525Lmb1_mlupus in MRL and B6 F2 cross (mouse)Not determined4124371164150592401Mouse
25394568Skmw56_mskeletal muscle weight 56, EDL (mouse)4129965551133983265Mouse
10755521Hct1_mhematocrit 1 (mouse)4108583899142583899Mouse
1300809Ccrs2_mcorpus callosum hemisphere surface size 2 (mouse)Not determined4107371164141371360Mouse
1302078Sluc21_msusceptibility to lung cancer 21 (mouse)Not determined4117673830151673964Mouse
27226757Femd1_mfemur midshaft diameter 1, 5 week (mouse)4124100000144600000Mouse
12880433Fgf23lq1_mFGF23 serum level QTL 1 (mouse)4101300000135300000Mouse
1301964Bw8q2_mbody weight at 8 weeks QTL 2 (mouse)Not determined4120137122154137225Mouse
39128212Lwq21_mliver weight QTL 21 (mouse)489063832140740892Mouse
12910794Pwbwq8_mpost-weaning body weight QTL 8 (mouse)4105978113141706527Mouse
1301452Elsgp1_melevated serum gp70 1 (mouse)Not determined4121615338155615442Mouse
1300917Gasa1_mgastritis type A susceptibility locus 1 (mouse)Not determined4124161300142711450Mouse
4141065Shali2_msurvival time to hyperoxic acute lung injury 2 (mouse)Not determined124161300141845481Mouse
10043996Gct5_mgranulosa cell tumorigenesis 5 (mouse)Not determined4128057656156508116Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1561
Count of miRNA genes:565
Interacting mature miRNAs:664
Transcripts:ENSMUST00000008024, ENSMUST00000105897, ENSMUST00000138473, ENSMUST00000139709, ENSMUST00000145664, ENSMUST00000168582
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_001080819 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001363070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006539325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006539326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006539327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030253943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036164577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036164578 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF268912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK003972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK048464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK142143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC028548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC082554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX537327 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB193194 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR751606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR925752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DV646767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000008024   ⟹   ENSMUSP00000008024
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl4133,679,941 - 133,756,769 (-)Ensembl
RefSeq Acc Id: ENSMUST00000105897   ⟹   ENSMUSP00000101517
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl4133,679,008 - 133,753,611 (-)Ensembl
RefSeq Acc Id: ENSMUST00000138473
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl4133,689,487 - 133,753,982 (-)Ensembl
RefSeq Acc Id: ENSMUST00000139709   ⟹   ENSMUSP00000131950
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl4133,720,779 - 133,723,879 (-)Ensembl
RefSeq Acc Id: ENSMUST00000145664   ⟹   ENSMUSP00000122354
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl4133,679,008 - 133,753,611 (-)Ensembl
RefSeq Acc Id: ENSMUST00000168582
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl4133,719,360 - 133,720,776 (-)Ensembl
RefSeq Acc Id: NM_001080819   ⟹   NP_001074288
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,406,319 - 133,481,296 (-)NCBI
GRCm384133,679,008 - 133,753,985 (-)NCBI
MGSCv374133,234,923 - 133,309,526 (-)RGD
Celera4131,854,780 - 131,931,113 (-)RGD
cM Map4 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001363070   ⟹   NP_001349999
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,406,319 - 133,484,080 (-)NCBI
GRCm384133,679,008 - 133,756,769 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006539325   ⟹   XP_006539388
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,406,319 - 133,481,679 (-)NCBI
GRCm384133,679,008 - 133,754,357 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006539326   ⟹   XP_006539389
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,406,970 - 133,481,679 (-)NCBI
GRCm384133,679,659 - 133,754,357 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006539327   ⟹   XP_006539390
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,406,970 - 133,481,307 (-)NCBI
GRCm384133,679,008 - 133,753,994 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030253943   ⟹   XP_030109803
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,407,053 - 133,484,682 (-)NCBI
GRCm384133,679,008 - 133,755,152 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036164577   ⟹   XP_036020470
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,406,970 - 133,481,299 (-)NCBI
RefSeq Acc Id: XM_036164578   ⟹   XP_036020471
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394133,406,970 - 133,483,941 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001074288   ⟸   NM_001080819
- Peptide Label: isoform 1
- UniProtKB: A2BH40 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006539390   ⟸   XM_006539327
- Peptide Label: isoform X3
- UniProtKB: A2BH40 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006539389   ⟸   XM_006539326
- Peptide Label: isoform X2
- UniProtKB: E9QAQ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006539388   ⟸   XM_006539325
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001349999   ⟸   NM_001363070
- Peptide Label: isoform 2
RefSeq Acc Id: XP_030109803   ⟸   XM_030253943
- Peptide Label: isoform X3
RefSeq Acc Id: ENSMUSP00000131950   ⟸   ENSMUST00000139709
RefSeq Acc Id: ENSMUSP00000101517   ⟸   ENSMUST00000105897
RefSeq Acc Id: ENSMUSP00000008024   ⟸   ENSMUST00000008024
RefSeq Acc Id: ENSMUSP00000122354   ⟸   ENSMUST00000145664
RefSeq Acc Id: XP_036020471   ⟸   XM_036164578
- Peptide Label: isoform X4
RefSeq Acc Id: XP_036020470   ⟸   XM_036164577
- Peptide Label: isoform X4
Protein Domains
ARID   BAF250_C

Promoters
RGD ID:6834906
Promoter ID:MM_KWN:40035
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Lung
Transcripts:OTTMUST00000025858
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv364133,242,691 - 133,243,417 (-)MPROMDB
RGD ID:6834904
Promoter ID:MM_KWN:40036
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_2Hour,   BoneMarrow_4Hour,   Liver,   MEF_B6
Transcripts:OTTMUST00000025854
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv364133,251,396 - 133,252,062 (-)MPROMDB
RGD ID:6834903
Promoter ID:MM_KWN:40037
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day2,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Lung
Transcripts:ENSMUST00000105896,   OTTMUST00000026047
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv364133,278,616 - 133,280,017 (-)MPROMDB
RGD ID:6834905
Promoter ID:MM_KWN:40038
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   Spleen
Transcripts:OTTMUST00000025855,   UC008VDI.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv364133,308,621 - 133,310,517 (-)MPROMDB
RGD ID:6834908
Promoter ID:MM_KWN:40039
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000025853,   UC008VDJ.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv364133,312,306 - 133,313,407 (-)MPROMDB
RGD ID:6884970
Promoter ID:EPDNEW_M5936
Type:initiation region
Name:Arid1a_3
Description:Mus musculus AT rich interactive domain 1A (SWI-like) , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M5937  EPDNEW_M5938  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm384133,753,632 - 133,753,692EPDNEW
RGD ID:6884972
Promoter ID:EPDNEW_M5937
Type:multiple initiation site
Name:Arid1a_1
Description:Mus musculus AT rich interactive domain 1A (SWI-like) , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M5936  EPDNEW_M5938  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm384133,753,982 - 133,754,042EPDNEW
RGD ID:6884974
Promoter ID:EPDNEW_M5938
Type:initiation region
Name:Arid1a_2
Description:Mus musculus AT rich interactive domain 1A (SWI-like) , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M5936  EPDNEW_M5937  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm384133,756,789 - 133,756,849EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1935147 AgrOrtholog
Ensembl Genes ENSMUSG00000007880 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000008024 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000101517 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000122354 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000131950 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000008024 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000105897 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000139709 UniProtKB/TrEMBL
  ENSMUST00000145664 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.60 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ARID_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARID_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARM-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BAF250/Osa UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BAF250_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BAF250a UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:93760 UniProtKB/Swiss-Prot
MGD MGI:1935147 ENTREZGENE
NCBI Gene 93760 ENTREZGENE
PANTHER PTHR12656 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12656:SF12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ARID UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BAF250_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Arid1a PhenoGen
PROSITE ARID UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART BRIGHT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46774 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A2BH40 ENTREZGENE, UniProtKB/Swiss-Prot
  E9Q495_MOUSE UniProtKB/TrEMBL
  E9QAQ7 ENTREZGENE, UniProtKB/TrEMBL
  Q8C846_MOUSE UniProtKB/TrEMBL
  Q8R024_MOUSE UniProtKB/TrEMBL
UniProt Secondary Q640Q1 UniProtKB/Swiss-Prot
  Q925Q1 UniProtKB/Swiss-Prot