Gene
smarcd3b
- ID
- ZDB-GENE-080509-2
- Name
- SWI/SNF related BAF chromatin remodeling complex subunit D3b
- Symbol
- smarcd3b Nomenclature History
- Previous Names
-
- smarcd3 (1)
- smarcd3l
- Type
- protein_coding_gene
- Location
- Chr: 7 Mapping Details/Browsers
- Description
- Predicted to enable transcription coregulator activity. Acts upstream of or within cardiac muscle cell differentiation; determination of left/right symmetry; and heart morphogenesis. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Is expressed in several structures, including brain; immature eye; margin; notochord; and tail bud. Orthologous to human SMARCD3 (SWI/SNF related BAF chromatin remodeling complex subunit D3).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 5 figures from 2 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la010513Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa12191 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa12626 | Allele with one point mutation | Unknown | Splice Site | ENU |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| MO1-smarcd3b | N/A | (3) |
| MO2-smarcd3b | N/A | Takeuchi et al., 2007 |
| MO3-smarcd3b | N/A | Ochi et al., 2008 |
| MO4-smarcd3b | N/A | Ochi et al., 2008 |
| MO5-smarcd3b | N/A | Ochi et al., 2008 |
| MO6-smarcd3b | N/A | Huang et al., 2013 |
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Human Disease
Domain, Family, and Site Summary
Domain Details Per Protein
| Protein | Additional Resources | Length | SWIB domain | SWIB/MDM2 domain | SWIB/MDM2 domain superfamily | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D 3, SWIB domain |
|---|---|---|---|---|---|---|
| UniProtKB:A0A8M2BDZ5 | InterPro | 454 | ||||
| UniProtKB:B2KL77 | InterPro | 476 | ||||
| UniProtKB:A0A8M2BDT5 | InterPro | 506 | ||||
| UniProtKB:A0A8M9Q1P6 | InterPro | 532 | ||||
| UniProtKB:A0A8M9Q7X8 | InterPro | 510 |
| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
smarcd3b-201
(1)
|
Ensembl | 1,533 nt | ||
| mRNA |
smarcd3b-202
(1)
|
Ensembl | 533 nt | ||
| mRNA |
smarcd3b-203
(1)
|
Ensembl | 4,256 nt | ||
| mRNA |
smarcd3b-204
(1)
|
Ensembl | 1,417 nt |
Interactions and Pathways
No data available
Plasmids
No data available
No data available
| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | CH211-198H5 | ZFIN Curated Data | |
| Contained in | BAC | DKEY-10F23 |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001127306 (1) | 1431 nt | ||
| Genomic | GenBank:BX005319 (1) | 225639 nt | ||
| Polypeptide | UniProtKB:A0A8M9Q1P6 (1) | 532 aa |
- Boulanger, E., Barst, B.D., Alloy, M.M., Blais, S., Houde, M., Head, J.A. (2019) Assessment of environmentally contaminated sediment using a contact assay with early life stage zebrafish (Danio rerio). The Science of the total environment. 659:950-962
- Wang, W., Wang, B., Liu, Z., Xia, X. (2019) Developmental toxicity and alteration of gene expression in zebrafish embryo exposed to 6-benzylaminopurine. Chemosphere. 233:336-346
- 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
- Xiao, C., Gao, L., Hou, Y., Xu, C., Chang, N., Wang, F., Hu, K., He, A., Luo, Y., Wang, J., Peng, J., Tang, F., Zhu, X., Xiong, J.W. (2016) Chromatin-remodelling factor Brg1 regulates myocardial proliferation and regeneration in zebrafish. Nature communications. 7:13787
- Elkon, R., Milon, B., Morrison, L., Shah, M., Vijayakumar, S., Racherla, M., Leitch, C.C., Silipino, L., Hadi, S., Weiss-Gayet, M., Barras, E., Schmid, C.D., Ait-Lounis, A., Barnes, A., Song, Y., Eisenman, D.J., Eliyahu, E., Frolenkov, G.I., Strome, S.E., Durand, B., Zaghloul, N.A., Jones, S.M., Reith, W., Hertzano, R. (2015) RFX transcription factors are essential for hearing in mice. Nature communications. 6:8549
- Fukui, H., Terai, K., Nakajima, H., Chiba, A., Fukuhara, S., Mochizuki, N. (2014) S1P-Yap1 Signaling Regulates Endoderm Formation Required for Cardiac Precursor Cell Migration in Zebrafish. Developmental Cell. 31:128-136
- Nelson, A.C., Cutty, S.J., Niini, M., Stemple, D.L., Flicek, P., Houart, C., Bruce, A., Wardle, F.C. (2014) Global identification of Smad2 and Eomesodermin targets in zebrafish identifies a conserved transcriptional network in mesendoderm and a novel role for Eomesodermin in repression of ectodermal gene expression. BMC Biology. 12:81
- 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
- Zhang, Y., Wang, C., Huang, L., Chen, R., Chen, Y., and Zuo, Z. (2012) Low-level pyrene exposure causes cardiac toxicity in zebrafish (Danio rerio) embryos. Aquatic toxicology (Amsterdam, Netherlands). 114-115C:119-124
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