Gene
arid1ab
- ID
- ZDB-GENE-030131-5725
- Name
- AT-rich interactive domain 1Ab
- Symbol
- arid1ab Nomenclature History
- Previous Names
-
- fb82h08
- fi15b05
- im:7160733
- si:dkey-180c19.1
- wu:fb82h08
- wu:fi15b05
- Type
- protein_coding_gene
- Location
- Chr: 19 Mapping Details/Browsers
- Description
- Predicted to enable DNA binding activity. Predicted to contribute to nucleosome binding activity. Predicted to be involved in positive regulation of DNA-templated transcription and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromatin remodeling. Predicted to be located in nucleus. Predicted to be part of SWI/SNF complex and nBAF complex. Predicted to be active in nucleoplasm. 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).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 1 figure from Thisse et al., 2004
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- IMAGE:7160733 (1 image)
Wild Type Expression Summary
- All Phenotype Data
- No data available
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la028032Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa125 | Allele with one point mutation | Unknown | Unknown | ENU | |
| sa325 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa9694 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa11863 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa13031 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa13632 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| zdf44 | Allele with one deletion | Unknown | Unknown | CRISPR |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-arid1ab | (2) | |
| CRISPR2-arid1ab | (2) | |
| CRISPR3-arid1ab | (2) | |
| CRISPR4-arid1ab | (2) | |
| CRISPR5-arid1ab | (2) | |
| CRISPR6-arid1ab | (2) | |
| CRISPR7-arid1ab | (2) | |
| CRISPR8-arid1ab | (2) | |
| CRISPR9-arid1ab | (2) | |
| CRISPR10-arid1ab | (2) |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| Coffin-Siris syndrome 2 | Alliance | Coffin-Siris syndrome 2 | 614607 |
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Domain, Family, and Site Summary
| Type | InterPro ID | Name |
|---|---|---|
| Domain | IPR001606 | ARID DNA-binding domain |
| Domain | IPR033388 | SWI/SNF-like complex subunit BAF250, C-terminal |
| Family | IPR021906 | SWI/SNF-like complex subunit BAF250/Osa |
| Homologous_superfamily | IPR011989 | Armadillo-like helical |
| Homologous_superfamily | IPR036431 | ARID DNA-binding domain superfamily |
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Domain Details Per Protein
| Protein | Additional Resources | Length | ARID DNA-binding domain | ARID DNA-binding domain superfamily | Armadillo-like helical | SWI/SNF-like complex subunit BAF250, C-terminal | SWI/SNF-like complex subunit BAF250/Osa |
|---|---|---|---|---|---|---|---|
| UniProtKB:A0A8M9PSC1 | InterPro | 2261 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
arid1ab-202
(1)
|
Ensembl | 6,303 nt | ||
| mRNA |
arid1ab-203
(1)
|
Ensembl | 10,429 nt | ||
| ncRNA |
arid1ab-002
(1)
|
Ensembl | 475 nt |
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Interactions and Pathways
No data available
Plasmids
No data available
No data available
| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | DKEY-180C19 | ZFIN Curated Data | |
| Encodes | EST | fb82h08 | ||
| Encodes | EST | fi15b05 | ||
| Encodes | EST | IMAGE:7160733 | Thisse et al., 2004 |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:XM_021468300 (1) | 8010 nt | ||
| Genomic | GenBank:CT027837 (2) | 195174 nt | ||
| Polypeptide | UniProtKB:A0A8M9PSC1 (1) | 2261 aa |
- Shi, H., Tao, T., Abraham, B.J., Durbin, A.D., Zimmerman, M.W., Kadoch, C., Look, A.T. (2020) ARID1A loss in neuroblastoma promotes the adrenergic-to-mesenchymal transition by regulating enhancer-mediated gene expression. Science advances. 6:eaaz3440
- Moreno-Mateos, M.A., Vejnar, C.E., Beaudoin, J.D., Fernandez, J.P., Mis, E.K., Khokha, M.K., Giraldez, A.J. (2015) CRISPRscan: designing highly efficient sgRNAs for CRISPR-Cas9 targeting in vivo. Nature Methods. 12:982-8
- Huang, H.T., Kathrein, K.L., Barton, A., Gitlin, Z., Huang, Y.H., Ward, T.P., Hofmann, O., Dibiase, A., Song, A., Tyekucheva, S., Hide, W., Zhou, Y., and Zon, L.I. (2013) A network of epigenetic regulators guides developmental haematopoiesis in vivo. Nature cell biology. 15(12):1516-1525
- Varshney, G.K., Lu, J., Gildea, D., Huang, H., Pei, W., Yang, Z., Huang, S.C., Schoenfeld, D.S., Pho, N., Casero, D., Hirase, T., Mosbrook-Davis, D.M., Zhang, S., Jao, L.E., Zhang, B., Woods, I.G., Zimmerman, S., Schier, A.F., Wolfsberg, T., Pellegrini, M., Burgess, S.M., and Lin, S. (2013) A large-scale zebrafish gene knockout resource for the genome-wide study of gene function. Genome research. 23(4):727-735
- Wang, D., Jao, L.E., Zheng, N., Dolan, K., Ivey, J., Zonies, S., Wu, X., Wu, K., Yang, H., Meng, Q., Zhu, Z., Zhang, B., Lin, S., and Burgess, S.M. (2007) Efficient genome-wide mutagenesis of zebrafish genes by retroviral insertions. Proceedings of the National Academy of Sciences of the United States of America. 104(30):12428-12433
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