Gene
kdm5ba
- ID
- ZDB-GENE-030131-5379
- Name
- lysine demethylase 5Ba
- Symbol
- kdm5ba Nomenclature History
- Previous Names
-
- id:ibd5050
- jarid1b
- jarid1ba
- wu:fd15c05
- Type
- protein_coding_gene
- Location
- Chr: 11 Mapping Details/Browsers
- Description
- Predicted to enable histone H3K4me/H3K4me2/H3K4me3 demethylase activity. Predicted to be involved in chromatin remodeling and regulation of DNA-templated transcription. Predicted to act upstream of or within chromatin organization. Predicted to be active in chromatin and nucleus. Is expressed in neural rod; paraxial mesoderm; pronephric duct; tail bud; and telencephalon. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 65; breast cancer; and high grade glioma. Orthologous to human KDM5B (lysine demethylase 5B).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 3 figures from 2 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
- All Phenotype Data
- No data available
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| sa7348 | Allele with one point mutation | Unknown | Missense | ENU | |
| sa14585 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa16159 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa21908 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa27786 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa31828 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa35081 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa35082 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa38842 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| uab316 | Allele with one delins | Unknown | Unknown | CRISPR |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-kdm5ba | (2) | |
| CRISPR2-kdm5ba | (2) | |
| MO1-kdm5ba | N/A | Huang et al., 2013 |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| autosomal recessive intellectual developmental disorder 65 | Alliance | Intellectual developmental disorder, autosomal recessive 65 | 618109 |
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Domain, Family, and Site Summary
Domain Details Per Protein
| Protein | Additional Resources | Length | ARID DNA-binding domain | ARID DNA-binding domain superfamily | JmjC domain | JmjN domain | Lysine-specific demethylase 5B, first PHD-finger | Lysine-specific demethylase 5B, third PHD-finger | Lysine-specific demethylase 5, C-terminal helical domain | Lysine-specific demethylase-like domain | Zinc finger, C5HC2-type | Zinc finger, FYVE/PHD-type | Zinc finger, PHD-finger | Zinc finger, PHD-type | Zinc finger, PHD-type, conserved site | Zinc finger, RING/FYVE/PHD-type |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| UniProtKB:A5WUR6 | InterPro | 1477 | ||||||||||||||
| UniProtKB:A0A8M9Q713 | InterPro | 1478 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
kdm5ba-201
(1)
|
Ensembl | 5,330 nt | ||
| mRNA |
kdm5ba-202
(1)
|
Ensembl | 425 nt | ||
| mRNA |
kdm5ba-203
(1)
|
Ensembl | 5,677 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 | CH211-137O16 | ZFIN Curated Data | |
| Encodes | EST | fd15c05 | ||
| Encodes | EST | ibd5050 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001347607 (1) | 5677 nt | ||
| Genomic | GenBank:CR628365 (1) | 191036 nt | ||
| Polypeptide | UniProtKB:A0A8M9Q713 (1) | 1478 aa |
- Zebrafish Nomenclature Committee (2025) Nomenclature Data Curation (2025). Nomenclature Committee Submission.
- Weinschutz Mendes, H., Neelakantan, U., Liu, Y., Fitzpatrick, S.E., Chen, T., Wu, W., Pruitt, A., Jin, D.S., Jamadagni, P., Carlson, M., Lacadie, C.M., Enriquez, K.D., Li, N., Zhao, D., Ijaz, S., Sakai, C., Szi, C., Rooney, B., Ghosh, M., Nwabudike, I., Gorodezky, A., Chowdhury, S., Zaheer, M., McLaughlin, S., Fernandez, J.M., Wu, J., Eilbott, J.A., Vander Wyk, B., Rihel, J., Papademetris, X., Wang, Z., Hoffman, E.J. (2023) High-throughput functional analysis of autism genes in zebrafish identifies convergence in dopaminergic and neuroimmune pathways. Cell Reports. 42:112243112243
- Blanc, M., Rüegg, J., Scherbak, N., Keiter, S.H. (2019) Environmental chemicals differentially affect epigenetic-related mechanisms in the zebrafish liver (ZF-L) cell line and in zebrafish embryos. Aquatic toxicology (Amsterdam, Netherlands). 215:105272
- Fellous, A., Earley, R.L., Silvestre, F. (2018) The Kdm/Kmt gene families in the self-fertilizing mangrove rivulus fish, Kryptolebias marmoratus, suggest involvement of histone methylation machinery in development and reproduction. Gene. 687:173-187
- Braasch, I., Gehrke, A.R., Smith, J.J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A.M., Campbell, M.S., Barrell, D., Martin, K.J., Mulley, J.F., Ravi, V., Lee, A.P., Nakamura, T., Chalopin, D., Fan, S., Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F.E., Sun, Y., Hertel, J., Beam, M.J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J.H., Litman, G.W., Litman, R.T., Mikami, M., Ota, T., Saha, N.R., Williams, L., Stadler, P.F., Wang, H., Taylor, J.S., Fontenot, Q., Ferrara, A., Searle, S.M., Aken, B., Yandell, M., Schneider, I., Yoder, J.A., Volff, J.N., Meyer, A., Amemiya, C.T., Venkatesh, B., Holland, P.W., Guiguen, Y., Bobe, J., Shubin, N.H., Di Palma, F., Alföldi, J., Lindblad-Toh, K., Postlethwait, J.H. (2016) The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48(4):427-37
- Diotel, N., Viales, R.R., Armant, O., März, M., Ferg, M., Rastegar, S., Strähle, U. (2015) Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. The Journal of comparative neurology. 523(8):1202-21
- 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
- Nishio, S.I., Gibert, Y., Bernard, L., Brunet, F., Triqueneaux, G., and Laudet, V. (2008) Adiponectin and adiponectin receptor genes are coexpressed during zebrafish embryogenesis and regulated by food deprivation. Developmental Dynamics : an official publication of the American Association of Anatomists. 237(6):1682-1690
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