Arid1b (AT-rich interaction domain 1B) - Rat Genome Database

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Gene: Arid1b (AT-rich interaction domain 1B) Rattus norvegicus
Analyze
Symbol: Arid1b
Name: AT-rich interaction domain 1B
RGD ID: 708504
Description: Predicted to enable DNA binding activity. Predicted to contribute to nucleosome binding activity. Involved in cellular response to angiotensin and response to ischemia. Predicted to be located in nucleus. Predicted to be part of SWI/SNF complex and nBAF complex. Predicted to be active in nucleoplasm. Used to study ischemia. Biomarker of hypertension and ischemia. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome; Coffin-Siris syndrome 1; intellectual disability; lung non-small cell carcinoma; and neuroblastoma. Orthologous to human ARID1B (AT-rich interaction domain 1B); PARTICIPATES IN altered SWI/SNF family mediated chromatin remodeling pathway; pancreatic cancer pathway; SWI/SNF family mediated chromatin remodeling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 6A3-5; AT rich interactive domain 1B (Swi1 like); AT-rich interactive domain-containing protein 1B; LOC308086; smcf-1; Smcf1; transcription factor 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Arid1bem1Mcwi
Genetic Models: LE-Arid1bem1Mcwi
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8147,973,199 - 48,328,793 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl147,973,997 - 48,328,793 (+)EnsemblGRCr8
mRatBN7.2145,567,991 - 45,923,644 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl145,563,623 - 45,923,493 (+)EnsemblmRatBN7.2
Rnor_6.0145,923,119 - 46,232,301 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl145,923,222 - 46,234,874 (+)Ensemblrn6Rnor6.0
Rnor_5.0147,197,399 - 47,550,032 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4140,012,872 - 40,324,266 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera141,265,931 - 41,618,978 (+)NCBICelera
Cytogenetic Map1q11NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-hydroxyphenyl retinamide  (ISO)
acrolein  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (EXP)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
decabromodiphenyl ether  (EXP)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenthion  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
furan  (EXP)
gentamycin  (EXP)
glyphosate  (EXP)
L-methionine  (ISO)
methapyrilene  (EXP,ISO)
methidathion  (ISO)
methoxychlor  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
phenobarbital  (ISO)
resveratrol  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sulindac  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
brahma complex  (IEA)
nBAF complex  (IBA,IEA,ISO)
nucleoplasm  (IBA,IEA,ISO)
nucleus  (IEA,ISO)
SWI/SNF complex  (IBA,IEA,ISO)
synapse  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. [Radiotherapy of bone tumors]. Bataini JP, etal., Helv Chir Acta. 1973 Mar;40(1):53-68.
2. Ischemia induces early expression of a new transcription factor (6A3-5) in kidney vascular smooth muscle cells: studies in rat and human renal pathology. Garin G, etal., Am J Pathol 2003 Dec;163(6):2485-94.
3. 6A3-5/Osa2 is an early activated gene implicated in the control of vascular smooth muscle cell functions. Garin G, etal., J Biomed Biotechnol. 2006;2006(5):97287.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. ATP-dependent chromatin remodeling: genetics, genomics and mechanisms. Hargreaves DC and Crabtree GR, Cell Res. 2011 Mar;21(3):396-420. doi: 10.1038/cr.2011.32. Epub 2011 Mar 1.
6. Haploinsufficiency of ARID1B, a member of the SWI/SNF-a chromatin-remodeling complex, is a frequent cause of intellectual disability. Hoyer J, etal., Am J Hum Genet. 2012 Mar 9;90(3):565-72. doi: 10.1016/j.ajhg.2012.02.007.
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. GOA pipeline RGD automated data pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
12. Integrated genomic analyses identify ARID1A and ARID1B alterations in the childhood cancer neuroblastoma. Sausen M, etal., Nat Genet. 2013 Jan;45(1):12-7. doi: 10.1038/ng.2493. Epub 2012 Dec 2.
13. The spectrum of SWI/SNF mutations, ubiquitous in human cancers. Shain AH and Pollack JR, PLoS One. 2013;8(1):e55119. doi: 10.1371/journal.pone.0055119. Epub 2013 Jan 23.
14. Arid1b Haploinsufficiency Causes Abnormal Brain Gene Expression and Autism-Related Behaviors in Mice. Shibutani M, etal., Int J Mol Sci. 2017 Aug 30;18(9). pii: E1872. doi: 10.3390/ijms18091872.
15. Expanding the phenotypic spectrum of ARID1B-mediated disorders and identification of altered cell-cycle dynamics due to ARID1B haploinsufficiency. Sim JC, etal., Orphanet J Rare Dis. 2014 Mar 27;9:43. doi: 10.1186/1750-1172-9-43.
16. Subunits of ARID1 serve as novel biomarkers for the sensitivity to immune checkpoint inhibitors and prognosis of advanced non-small cell lung cancer. Sun D, etal., Mol Med. 2020 Aug 13;26(1):78. doi: 10.1186/s10020-020-00208-9.
Additional References at PubMed
PMID:8889548   PMID:11734557   PMID:15632090   PMID:23785148   PMID:24335282   PMID:26937011   PMID:34620277  


Genomics

Comparative Map Data
Arid1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8147,973,199 - 48,328,793 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl147,973,997 - 48,328,793 (+)EnsemblGRCr8
mRatBN7.2145,567,991 - 45,923,644 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl145,563,623 - 45,923,493 (+)EnsemblmRatBN7.2
Rnor_6.0145,923,119 - 46,232,301 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl145,923,222 - 46,234,874 (+)Ensemblrn6Rnor6.0
Rnor_5.0147,197,399 - 47,550,032 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4140,012,872 - 40,324,266 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera141,265,931 - 41,618,978 (+)NCBICelera
Cytogenetic Map1q11NCBI
ARID1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386156,776,026 - 157,210,779 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6156,776,020 - 157,210,779 (+)Ensemblhg38GRCh38
GRCh376157,097,160 - 157,531,913 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366157,140,778 - 157,572,094 (+)NCBIBuild 36Build 36hg18NCBI36
Celera6157,833,548 - 158,266,432 (+)NCBICelera
Cytogenetic Map6q25.3NCBI
HuRef6154,662,908 - 155,095,126 (+)NCBIHuRef
CHM1_16157,361,290 - 157,794,248 (+)NCBICHM1_1
T2T-CHM13v2.06157,978,277 - 158,414,307 (+)NCBIT2T-CHM13v2.0
Arid1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39175,044,481 - 5,397,931 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl175,044,607 - 5,397,931 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38174,994,297 - 5,347,656 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl174,994,332 - 5,347,656 (+)Ensemblmm10GRCm38
MGSCv37174,995,074 - 5,347,656 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36174,951,556 - 5,304,138 (+)NCBIMGSCv36mm8
Celera175,535,690 - 5,889,432 (+)NCBICelera
Cytogenetic Map17A1NCBI
cM Map172.83NCBI
Arid1b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554395,043,967 - 5,412,741 (-)Ensembl
ChiLan1.0NW_0049554395,041,111 - 5,454,692 (-)NCBIChiLan1.0ChiLan1.0
ARID1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25176,787,897 - 177,224,679 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16174,677,523 - 175,115,027 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06154,581,148 - 155,018,706 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16160,591,552 - 160,974,991 (+)NCBIPanPan1.1PanPan1.1panPan2
ARID1B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1146,370,621 - 46,800,531 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl146,372,767 - 46,799,104 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha147,210,058 - 47,644,974 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0146,551,672 - 46,987,264 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl146,509,497 - 46,986,887 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1146,431,157 - 46,866,140 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0146,293,851 - 46,729,000 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0146,852,647 - 47,287,701 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Arid1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946141,559,103 - 141,950,795 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364899,087,697 - 9,205,203 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364898,811,094 - 9,202,423 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARID1B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl19,791,633 - 10,227,502 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.119,791,627 - 10,227,381 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2111,848,862 - 11,892,273 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ARID1B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11384,351,298 - 84,799,691 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604056,722,798 - 57,162,669 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Arid1b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624785973,003 - 1,417,853 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624785970,169 - 1,417,847 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Arid1b
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12193,471,622 - 193,817,118 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Arid1b
1557 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:600
Count of miRNA genes:266
Interacting mature miRNAs:340
Transcripts:ENSRNOT00000022939
Prediction methods:Microtar, Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)14345783787558729Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1774611852746118Rat
1357397Bw41Body weight QTL 414.190.0001body mass (VT:0001259)body weight (CMO:0000012)12940927974409279Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14630261591302615Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)14345783787558729Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)14630261591302615Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)14212296887122968Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1694102251941022Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)1690935351909353Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
631494Bp95Blood pressure QTL 95400.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)11731537851816258Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)1690935351909353Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)14630261591302615Rat
5684999Bss102Bone structure and strength QTL 1025.57e-07tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)1690935351909353Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14345783787558729Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)14630261591302615Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12050832665508326Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11168446456684464Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13456572679565726Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1774612152746121Rat
1558642Prcr2Prostate cancer resistance QTL 24.3prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)11037949255379492Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)14630261591302615Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)14350995288509952Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)14212296887122968Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11282049457820494Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)14630261591302615Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)12065642065656420Rat

Markers in Region
D1Mgh3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,803,140 - 45,803,251 (+)MAPPERmRatBN7.2
Rnor_6.0146,113,461 - 46,113,571NCBIRnor6.0
Rnor_5.0147,428,369 - 47,428,479UniSTSRnor5.0
RGSC_v3.4140,204,051 - 40,204,161UniSTSRGSC3.4
Celera141,498,011 - 41,498,121UniSTS
Cytogenetic Map1q11UniSTS
D1Rat313  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8148,051,506 - 48,051,713 (+)Marker Load Pipeline
mRatBN7.2145,646,325 - 45,646,532 (+)MAPPERmRatBN7.2
Rnor_6.0145,957,607 - 45,957,813NCBIRnor6.0
Rnor_5.0147,272,691 - 47,272,897UniSTSRnor5.0
RGSC_v3.4140,047,751 - 40,047,957UniSTSRGSC3.4
RGSC_v3.4140,047,750 - 40,047,957RGDRGSC3.4
RGSC_v3.1140,050,695 - 40,050,902RGD
FHH x ACI Map127.9UniSTS
FHH x ACI Map127.9RGD
Cytogenetic Map1q11UniSTS
STS-T31821  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,923,274 - 45,923,455 (+)MAPPERmRatBN7.2
Rnor_6.0146,233,156 - 46,233,336NCBIRnor6.0
Rnor_5.0147,548,314 - 47,548,494UniSTSRnor5.0
RGSC_v3.4140,324,041 - 40,324,221UniSTSRGSC3.4
Celera141,617,260 - 41,617,440UniSTS
Cytogenetic Map1q11UniSTS
AW531100  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,902,587 - 45,902,746 (+)MAPPERmRatBN7.2
Rnor_6.0146,213,472 - 46,213,630NCBIRnor6.0
Rnor_5.0147,528,234 - 47,528,392UniSTSRnor5.0
RGSC_v3.4140,304,314 - 40,304,472UniSTSRGSC3.4
Celera141,597,564 - 41,597,722UniSTS
RH 3.4 Map1512.7UniSTS
Cytogenetic Map1q11UniSTS
AU046724  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,664,767 - 45,665,005 (+)MAPPERmRatBN7.2
Rnor_6.0145,976,053 - 45,976,290NCBIRnor6.0
Rnor_5.0147,290,720 - 47,290,957UniSTSRnor5.0
RGSC_v3.4140,065,928 - 40,066,165UniSTSRGSC3.4
Celera141,360,886 - 41,361,123UniSTS
Cytogenetic Map1q11UniSTS
RH138115  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,924,598 - 45,924,760 (+)MAPPERmRatBN7.2
Rnor_6.0146,234,480 - 46,234,641NCBIRnor6.0
Rnor_5.0147,549,638 - 47,549,799UniSTSRnor5.0
RGSC_v3.4140,325,365 - 40,325,526UniSTSRGSC3.4
Celera141,618,584 - 41,618,745UniSTS
RH 3.4 Map1515.1UniSTS
Cytogenetic Map1q11UniSTS
RH138438  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,861,865 - 45,862,049 (+)MAPPERmRatBN7.2
Rnor_6.0146,172,759 - 46,172,942NCBIRnor6.0
Rnor_5.0147,487,667 - 47,487,850UniSTSRnor5.0
RGSC_v3.4140,262,796 - 40,262,979UniSTSRGSC3.4
Celera141,556,872 - 41,557,055UniSTS
RH 3.4 Map1516.0UniSTS
Cytogenetic Map1q11UniSTS


Genetic Models
This gene Arid1b is modified in the following models/strains:
LE-Arid1bem1Mcwi    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000022939   ⟹   ENSRNOP00000022939
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl148,015,787 - 48,328,652 (+)Ensembl
mRatBN7.2 Ensembl145,610,602 - 45,923,493 (+)Ensembl
Rnor_6.0 Ensembl145,923,222 - 46,233,374 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000084454   ⟹   ENSRNOP00000069438
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl147,974,008 - 48,328,793 (+)Ensembl
mRatBN7.2 Ensembl145,563,623 - 45,923,493 (+)Ensembl
Rnor_6.0 Ensembl145,923,222 - 46,232,119 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000092849   ⟹   ENSRNOP00000076007
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl146,230,557 - 46,234,874 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000092976   ⟹   ENSRNOP00000076073
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl147,973,997 - 48,328,793 (+)Ensembl
mRatBN7.2 Ensembl145,563,623 - 45,923,493 (+)Ensembl
Rnor_6.0 Ensembl145,923,222 - 46,230,523 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000126261   ⟹   ENSRNOP00000109702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl147,973,997 - 48,328,793 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000161412   ⟹   ENSRNOP00000110916
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl147,973,997 - 48,328,793 (+)Ensembl
RefSeq Acc Id: NM_001419802   ⟹   NP_001406731
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8147,973,997 - 48,328,793 (+)NCBI
mRatBN7.2145,568,812 - 45,923,634 (+)NCBI
RefSeq Acc Id: XM_039099688   ⟹   XP_038955616
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8147,973,721 - 48,328,793 (+)NCBI
mRatBN7.2145,568,535 - 45,923,644 (+)NCBI
RefSeq Acc Id: XM_039099692   ⟹   XP_038955620
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8147,973,721 - 48,328,793 (+)NCBI
mRatBN7.2145,568,535 - 45,922,241 (+)NCBI
RefSeq Acc Id: XM_039099696   ⟹   XP_038955624
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8147,973,721 - 48,328,793 (+)NCBI
mRatBN7.2145,568,535 - 45,923,644 (+)NCBI
RefSeq Acc Id: XM_039099697   ⟹   XP_038955625
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8147,973,199 - 48,328,793 (+)NCBI
mRatBN7.2145,567,991 - 45,922,241 (+)NCBI
Ensembl Acc Id: ENSRNOP00000076007   ⟸   ENSRNOT00000092849
Ensembl Acc Id: ENSRNOP00000069438   ⟸   ENSRNOT00000084454
Ensembl Acc Id: ENSRNOP00000076073   ⟸   ENSRNOT00000092976
Ensembl Acc Id: ENSRNOP00000022939   ⟸   ENSRNOT00000022939
RefSeq Acc Id: XP_038955625   ⟸   XM_039099697
- Peptide Label: isoform X4
- UniProtKB: F1LNP1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955616   ⟸   XM_039099688
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955624   ⟸   XM_039099696
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038955620   ⟸   XM_039099692
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001406731   ⟸   NM_001419802
- UniProtKB: A0A0G2JVD3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000110916   ⟸   ENSRNOT00000161412
Ensembl Acc Id: ENSRNOP00000109702   ⟸   ENSRNOT00000126261
Protein Domains
ARID

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LNP1-F1-model_v2 AlphaFold F1LNP1 1-1751 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708504 AgrOrtholog
BioCyc Gene G2FUF-61639 BioCyc
Ensembl Genes ENSRNOG00000017030 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022939 ENTREZGENE
  ENSRNOT00000022939.9 UniProtKB/TrEMBL
  ENSRNOT00000084454.3 UniProtKB/TrEMBL
  ENSRNOT00000092976 ENTREZGENE
  ENSRNOT00000092976.3 UniProtKB/TrEMBL
  ENSRNOT00000126261 ENTREZGENE
  ENSRNOT00000126261.1 UniProtKB/TrEMBL
  ENSRNOT00000161412 ENTREZGENE
  ENSRNOT00000161412.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.60 UniProtKB/TrEMBL
  1.25.10.10 UniProtKB/TrEMBL
InterPro ARID/BRIGHT_DNA-bd UniProtKB/TrEMBL
  ARID1B UniProtKB/TrEMBL
  ARID_dom_sf UniProtKB/TrEMBL
  ARM-like UniProtKB/TrEMBL
  BAF250_C UniProtKB/TrEMBL
  DUF3518 UniProtKB/TrEMBL
NCBI Gene 282546 ENTREZGENE
PANTHER PTHR12656 UniProtKB/TrEMBL
  PTHR12656:SF11 UniProtKB/TrEMBL
Pfam ARID UniProtKB/TrEMBL
  DUF3518 UniProtKB/TrEMBL
PhenoGen Arid1b PhenoGen
PROSITE ARID UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017030 RatGTEx
SMART ARID UniProtKB/TrEMBL
  BRIGHT UniProtKB/TrEMBL
Superfamily-SCOP ARID UniProtKB/TrEMBL
UniProt A0A0G2JVD3 ENTREZGENE, UniProtKB/TrEMBL
  A0A1B0GWZ0_RAT UniProtKB/TrEMBL
  A0ABK0LG48_RAT UniProtKB/TrEMBL
  A0ABK0M6J6_RAT UniProtKB/TrEMBL
  F1LNP1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Arid1b  AT-rich interaction domain 1B  Arid1b  AT rich interactive domain 1B (Swi1 like)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Arid1b  AT rich interactive domain 1B (Swi1 like)  LOC497729  hypothetical gene supported by NM_172157  Data merged from RGD:1584889 1643240 APPROVED
2006-11-19 LOC497729  hypothetical gene supported by NM_172157      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-07-08 Arid1b  AT rich interactive domain 1B (Swi1 like)      Symbol and Name updated 1299863 APPROVED
2005-05-03 Arid1b  AT rich interactive domain 1B (Swi1 like)  Smcf1  transcription factor 1  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2005-02-23 Smcf1  transcription factor 1  Arid1b_predicted  AT rich interactive domain 1B (Swi1 like) (predicted)  Data merged from RGD:1307482 737654 APPROVED
2005-01-12 Arid1b_predicted  AT rich interactive domain 1B (Swi1 like) (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL