Gene
smarcd2
- ID
- ZDB-GENE-080215-1
- Name
- SWI/SNF related BAF chromatin remodeling complex subunit D2
- Symbol
- smarcd2 Nomenclature History
- Previous Names
- None
- Type
- protein_coding_gene
- Location
- Chr: 12 Mapping Details/Browsers
- Description
- Predicted to enable transcription coregulator activity. Acts upstream of or within hematopoietic progenitor cell differentiation and neutrophil differentiation. Predicted to be located in nucleoplasm. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Orthologous to human SMARCD2 (SWI/SNF related BAF chromatin remodeling complex subunit D2).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- No data available
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
- All Phenotype Data
- 2 figures from Witzel et al., 2017
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-smarcd2 | Brocal et al., 2016 | |
| CRISPR2-smarcd2 | Brocal et al., 2016 | |
| CRISPR3-smarcd2 | (2) | |
| CRISPR4-smarcd2 | Witzel et al., 2017 | |
| MO1-smarcd2 | N/A | Huang et al., 2013 |
| MO2-smarcd2 | N/A | (2) |
| MO3-smarcd2 | N/A | Witzel et al., 2017 |
| MO4-smarcd2 | N/A | Witzel et al., 2017 |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| Specific granule deficiency 2 | 617475 |
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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 2, SWIB domain |
|---|---|---|---|---|---|---|
| UniProtKB:E7EYW7 | InterPro | 501 | ||||
| UniProtKB:A0A8M9QJ30 | InterPro | 380 | ||||
| UniProtKB:A0AB32U0Q1 | InterPro | 520 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| aberrant processed transcript |
smarcd2-202
(1)
|
Ensembl | 724 nt | ||
| mRNA |
smarcd2-201
(1)
|
Ensembl | 3,116 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 | CH73-103L1 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:XM_068224730 (1) | 2487 nt | ||
| Genomic | GenBank:CU459020 (1) | 114759 nt | ||
| Polypeptide | UniProtKB:A0AB32U0Q1 (1) | 520 aa |
- Capon, S.J., Uribe, V., Dominado, N., Ehrlich, O., Smith, K.A. (2022) Endocardial identity is established during early somitogenesis by Bmp signalling acting upstream of npas4l and etv2. Development (Cambridge, England). 149(9):
- Postlethwait, J.H., Massaquoi, M.S., Farnsworth, D.R., Yan, Y.L., Guillemin, K., Miller, A.C. (2021) The SARS-CoV-2 receptor and other key components of the Renin-Angiotensin-Aldosterone System related to COVID-19 are expressed in enterocytes in larval zebrafish. Biology Open. 10(3):
- Postlethwait, J.H., Farnsworth, D.R., Miller, A.C. (2020) An intestinal cell type in zebrafish is the nexus for the SARS-CoV-2 receptor and the Renin-Angiotensin-Aldosterone System that contributes to COVID-19 comorbidities. ZFIN Direct Data Submission.
- Witzel, M., Petersheim, D., Fan, Y., Bahrami, E., Racek, T., Rohlfs, M., Puchałka, J., Mertes, C., Gagneur, J., Ziegenhain, C., Enard, W., Stray-Pedersen, A., Arkwright, P.D., Abboud, M.R., Pazhakh, V., Lieschke, G.J., Krawitz, P.M., Dahlhoff, M., Schneider, M.R., Wolf, E., Horny, H.P., Schmidt, H., Schäffer, A.A., Klein, C. (2017) Chromatin-remodeling factor SMARCD2 regulates transcriptional networks controlling differentiation of neutrophil granulocytes. Nature Genetics. 49(5):742-752
- Brocal, I., White, R.J., Dooley, C.M., Carruthers, S.N., Clark, R., Hall, A., Busch-Nentwich, E.M., Stemple, D.L., Kettleborough, R.N. (2016) Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish. BMC Genomics. 17:259
- 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
- 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
- Sundström, G., Larsson, T.A., Larhammar, D. (2008) Phylogenetic and chromosomal analyses of multiple gene families syntenic with vertebrate Hox clusters. BMC Evolutionary Biology. 8(1):254
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