Arid1a (AT-rich interaction domain 1A) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Arid1a (AT-rich interaction domain 1A) Ictidomys tridecemlineatus
Analyze
Symbol: Arid1a
Name: AT-rich interaction domain 1A
RGD ID: 12702881
Description: ENCODES a protein that exhibits ATP-dependent chromatin remodeler activity (ortholog); nuclear receptor binding (ortholog); nucleosome binding (ortholog); INVOLVED IN cardiac chamber development (ortholog); cardiac muscle cell differentiation (ortholog); chromatin organization (ortholog); PARTICIPATES IN altered SWI/SNF family mediated chromatin remodeling pathway; pancreatic cancer pathway; SWI/SNF family mediated chromatin remodeling pathway; ASSOCIATED WITH Acute Hepatitis (ortholog); adenocarcinoma (ortholog); adenoid cystic carcinoma (ortholog); FOUND IN chromatin (ortholog); npBAF complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: AT-rich interactive domain-containing protein 1A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505845,325,365 - 45,372,530 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493647411,148,857 - 11,197,312 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Hepatitis  (ISO)
adenocarcinoma  (ISO)
adenoid cystic carcinoma  (ISO)
autism spectrum disorder  (ISO)
breast cancer  (ISO)
Breast Neoplasms  (ISO)
Burkitt lymphoma  (ISO)
cerebellar hypoplasia  (ISO)
cholangiocarcinoma  (ISO)
Coffin-Siris syndrome  (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)
embryonal rhabdomyosarcoma  (ISO)
endometrial adenocarcinoma  (ISO)
endometrial cancer  (ISO)
endometrial carcinoma  (ISO)
Endometrial Neoplasms  (ISO)
epilepsy  (ISO)
esophagus adenocarcinoma  (ISO)
Experimental Liver Neoplasms  (ISO)
gastric adenocarcinoma  (ISO)
genetic disease  (ISO)
hepatoblastoma  (ISO)
hepatocellular carcinoma  (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)
microcephaly  (ISO)
Microsatellite Instability  (ISO)
nasopharynx carcinoma  (ISO)
Neoplasm Metastasis  (ISO)
nephroblastoma  (ISO)
neuroblastoma  (ISO)
Neurodevelopmental Disorders  (ISO)
non-functioning pancreatic endocrine tumor  (ISO)
ovarian clear cell carcinoma  (ISO)
ovary serous adenocarcinoma  (ISO)
periventricular leukomalacia  (ISO)
pre-eclampsia  (ISO)
primary cutaneous T-cell non-Hodgkin lymphoma  (ISO)
Prostatic Neoplasms  (ISO)
retinitis pigmentosa 59  (ISO)
septooptic dysplasia  (ISO)
Sezary's disease  (ISO)
small intestine carcinoma  (ISO)
stomach cancer  (ISO)
stomach carcinoma  (ISO)
Stomach Neoplasms  (ISO)
T-cell non-Hodgkin lymphoma  (ISO)
transitional cell carcinoma  (ISO)
urinary bladder cancer  (ISO)
Urinary Bladder Neoplasm  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Arid1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505845,325,365 - 45,372,530 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493647411,148,857 - 11,197,312 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARID1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38126,696,015 - 26,782,104 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl126,693,236 - 26,782,104 (+)EnsemblGRCh38hg38GRCh38
GRCh37127,022,506 - 27,108,595 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,895,109 - 26,981,188 (+)NCBINCBI36Build 36hg18NCBI36
Build 34126,706,666 - 26,792,737NCBI
Celera125,419,777 - 25,505,606 (+)NCBICelera
Cytogenetic Map1p36.11NCBI
HuRef125,309,350 - 25,361,809 (+)NCBIHuRef
CHM1_1127,135,825 - 27,221,852 (+)NCBICHM1_1
T2T-CHM13v2.0126,533,960 - 26,620,059 (+)NCBIT2T-CHM13v2.0
Arid1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394133,406,319 - 133,484,682 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4133,406,319 - 133,484,080 (-)EnsemblGRCm39 Ensembl
GRCm384133,679,008 - 133,756,769 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4133,679,008 - 133,756,769 (-)EnsemblGRCm38mm10GRCm38
MGSCv374133,234,923 - 133,309,526 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364132,951,084 - 133,029,633 (-)NCBIMGSCv36mm8
Celera4131,854,780 - 131,931,113 (-)NCBICelera
Cytogenetic Map4D2.3NCBI
cM Map466.25NCBI
Arid1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85151,192,014 - 151,269,291 (-)NCBIGRCr8
mRatBN7.25145,908,173 - 145,981,552 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5145,908,181 - 145,985,564 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5148,610,576 - 148,683,764 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05150,380,181 - 150,453,373 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05150,366,738 - 150,439,933 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05151,904,687 - 151,977,973 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5151,904,684 - 151,977,636 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05155,592,617 - 155,665,889 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45151,355,617 - 151,398,647 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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
NHGRI_mPanPan1-v21200,085,631 - 200,171,818 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11199,189,927 - 199,276,131 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0125,960,868 - 26,047,057 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1127,019,596 - 27,103,239 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl127,018,616 - 27,103,239 (+)Ensemblpanpan1.1panPan2
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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0273,894,794 - 73,964,327 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl273,895,984 - 73,965,235 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1270,719,680 - 70,789,191 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0271,725,226 - 71,794,735 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0272,728,646 - 72,798,165 (-)NCBIUU_Cfam_GSD_1.0
ARID1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl684,049,087 - 84,123,349 (+)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 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20105,981,290 - 106,065,672 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603310,365,063 - 10,448,898 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Arid1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476410,672,735 - 10,759,634 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476410,672,673 - 10,759,634 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


RefSeq Acc Id: XM_040289164   ⟹   XP_040145098
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440505845,325,365 - 45,372,530 (+)NCBI
Protein Sequences
Protein RefSeqs XP_040145098 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000027306.1
  ENSSTOP00000032475.1
RefSeq Acc Id: XP_040145098   ⟸   XM_040289164
Protein Domains
ARID


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000031355 UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000032658.1 UniProtKB/TrEMBL
  ENSSTOT00000038532.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.60 UniProtKB/TrEMBL
InterPro ARID_dom UniProtKB/TrEMBL
  ARID_dom_sf UniProtKB/TrEMBL
  BAF250/Osa UniProtKB/TrEMBL
  BAF250a UniProtKB/TrEMBL
NCBI Gene Arid1a ENTREZGENE
PANTHER PTHR12656 UniProtKB/TrEMBL
  PTHR12656:SF12 UniProtKB/TrEMBL
Pfam ARID UniProtKB/TrEMBL
PROSITE ARID UniProtKB/TrEMBL
SMART ARID UniProtKB/TrEMBL
  BRIGHT UniProtKB/TrEMBL
Superfamily-SCOP SSF46774 UniProtKB/TrEMBL
UniProt A0A287D141_ICTTR UniProtKB/TrEMBL
  A0A287DG18_ICTTR UniProtKB/TrEMBL