Gene
sox11a
- ID
- ZDB-GENE-980526-395
- Name
- SRY-box transcription factor 11a
- Symbol
- sox11a Nomenclature History
- Previous Names
- Type
- protein_coding_gene
- Location
- Chr: 17 Mapping Details/Browsers
- Description
- Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within brain development; camera-type eye development; and negative regulation of smoothened signaling pathway. Predicted to be active in nucleus. Is expressed in several structures, including mesoderm; nervous system; neural keel; pleuroperitoneal region; and somite. Used to study Coffin-Siris syndrome. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 9. Orthologous to human SOX11 (SRY-box transcription factor 11).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 35 figures from 13 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- cb237 (25 images)
Wild Type Expression Summary
Phenotype Summary
Mutations
| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-sox11a | Jia et al., 2020 | |
| CRISPR2-sox11a | (2) | |
| CRISPR3-sox11a | Krueger et al., 2022 | |
| CRISPR4-sox11a | Okada et al., 2022 | |
| MO1-sox11a | N/A | Veldman et al., 2007 |
| MO2-sox11a | N/A | (2) |
| MO3-sox11a | N/A | Tsurusaki et al., 2014 |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| Coffin-Siris syndrome 9 | Alliance | Intellectual developmental disorder with microcephaly and with or without ocular malformations or hypogonadotropic hypogonadism | 615866 |
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| Human Disease | Fish | Conditions | Citations |
|---|---|---|---|
| Coffin-Siris syndrome | sox11aihb607/ihb607 (AB) | standard conditions | Jia et al., 2020 |
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Domain, Family, and Site Summary
Domain Details Per Protein
| Protein | Length | High mobility group box domain | High mobility group box domain superfamily | SRY-related HMG-box transcription factor-like | Transcription factor SOX-12/11/4 |
|---|---|---|---|---|---|
|
UniProtKB:Q9I9C8
|
354 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
sox11a-201
(1)
|
Ensembl | 3,298 nt |
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Interactions and Pathways
No data available
Plasmids
No data available
| Construct | Regulatory Region | Coding Sequence | Species | Tg Lines | Citations |
|---|---|---|---|---|---|
| Tg(A3sox11a-gata2a:GFP) |
|
| 1 | (2) | |
| Tg(A5sox11a-gata2a:GFP) |
|
| 1 | (2) | |
| Tg(A6sox11a-gata2a:GFP) |
|
| 1 | (3) | |
| Tg(A7sox11a-gata2a:GFP) |
|
| 1 | (2) |
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| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | CH211-169B18 | ZFIN Curated Data | |
| Encodes | EST | cb237 | Thisse et al., 2001 | |
| Encodes | EST | fb16g02 | ZFIN Curated Data | |
| Encodes | EST | ibd2104 | ZFIN Curated Data | |
| Encodes | cDNA | MGC:136533 | ZFIN Curated Data | |
| Encodes | cDNA | MGC:162570 | ZFIN Curated Data | |
| Encodes | cDNA | MGC:191544 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_131336 (1) | 3280 nt | ||
| Genomic | GenBank:AL929378 (2) | 169874 nt | ||
| Polypeptide | UniProtKB:Q9I9C8 (1) | 354 aa |
- Casey, M.J., Chan, P.P., Li, Q., Zu, J.F., Jette, C.A., Kohler, M., Myers, B.R., Stewart, R.A. (2024) A simple and scalable zebrafish model of Sonic hedgehog medulloblastoma. Cell Reports. 43:114559114559
- Song, K., Lin, Z., Cao, L., Lu, B., Chen, Y., Zhang, S., Lu, J., Xu, H. (2023) Sox11b regulates the migration and fate determination of Müller glia-derived progenitors during retina regeneration in zebrafish. Neural regeneration research. 18:445-450
- Banu, S., Gaur, N., Nair, S., Ravikrishnan, T., Khan, S., Mani, S., Bharathi, S., Mandal, K., Kuram, N.A., Vuppaladadium, S., Ravi, R., Murthy, C.L.N., Quoseena, M., Babu, N.S., Idris, M.M. (2022) Transcriptomic and proteomic analysis of epimorphic regeneration in zebrafish caudal fin tissue. Genomics. 114(2):110300
- Krueger, L.A., Morris, A.C. (2022) Generation of a zebrafish knock-in line expressing MYC-tagged Sox11a using CRISPR/Cas9 genome editing. Biochemical and Biophysical Research Communications. 608:8-13
- Okada, K., Aoki, K., Tabei, T., Sugio, K., Imai, K., Bonkohara, Y., Kamachi, Y. (2022) Key sequence features of CRISPR RNA for dual-guide CRISPR-Cas9 ribonucleoprotein complexes assembled with wild-type or HiFi Cas9. Nucleic acids research. 50(5):2854-2871
- 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):
- Ranawakage, D.C., Okada, K., Sugio, K., Kawaguchi, Y., Kuninobu-Bonkohara, Y., Takada, T., Kamachi, Y. (2021) Efficient CRISPR-Cas9-Mediated Knock-In of Composite Tags in Zebrafish Using Long ssDNA as a Donor. Frontiers in cell and developmental biology. 8:598634
- Tatarakis, D., Cang, Z., Wu, X., Sharma, P.P., Karikomi, M., MacLean, A.L., Nie, Q., Schilling, T.F. (2021) Single-cell transcriptomic analysis of zebrafish cranial neural crest reveals spatiotemporal regulation of lineage decisions during development. Cell Reports. 37:110140
- Zafar, I., Iftikhar, R., Ahmad, S.U., Rather, M.A. (2021) Genome wide identification, phylogeny, and synteny analysis of sox gene family in common carp (Cyprinus carpio). Biotechnology reports (Amsterdam, Netherlands). 30:e00607
- Huang, X., Wu, C., Gong, K., Chen, Q., Gu, Q., Qin, H., Zhao, C., Yu, T., Yang, L., Fu, W., Wang, Y., Qin, Q., Liu, S. (2020) Sox Gene Family Revealed Genetic Variations in Autotetraploid Carassius auratus. Frontiers in genetics. 11:804
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