Gene
sox11b
- ID
- ZDB-GENE-980526-466
- Name
- SRY-box transcription factor 11b
- Symbol
- sox11b Nomenclature History
- Previous Names
- Type
- protein_coding_gene
- Location
- Chr: 20 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 several processes, including camera-type eye development; negative regulation of smoothened signaling pathway; and regulation of sprouting angiogenesis. Predicted to be active in nucleus. Is expressed in several structures, including cardiovascular system; hindbrain neural keel; nervous system; pleuroperitoneal region; and somite. 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
- 21 figures from 11 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
Phenotype Summary
Mutations
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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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Domain, Family, and Site Summary
Domain Details Per Protein
| Protein | Additional Resources | 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:Q9I9C7 | InterPro | 368 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
sox11b-201
(1)
|
Ensembl | 2,699 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(B2sox11b-gata2a:GFP) |
|
| 1 | (2) | |
| Tg(B5sox11b-gata2a:GFP) |
|
| 1 | (2) | |
| Tg(B6sox11b-gata2a:GFP) |
|
| 1 | (2) |
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| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | DKEY-227H16 | ZFIN Curated Data | |
| Encodes | EST | fb53e02 | ZFIN Curated Data | |
| Encodes | EST | fc90d10 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_131337 (1) | 2666 nt | ||
| Genomic | GenBank:BX248324 (2) | 209057 nt | ||
| Polypeptide | UniProtKB:Q9I9C7 (1) | 368 aa |
- Ahmad, A., Bogoch, Y., Shvaizer, G., Guler, N., Levy, K., Elkouby, Y.M. (2025) The piRNA protein Asz1 is essential for germ cell and gonad development in zebrafish and exhibits differential necessities in distinct types of germ granules. PLoS Genetics. 21:e1010868e1010868
- Cigliola, V., Shoffner, A., Lee, N., Ou, J., Gonzalez, T.J., Hoque, J., Becker, C.J., Han, Y., Shen, G., Faw, T.D., Abd-El-Barr, M.M., Varghese, S., Asokan, A., Poss, K.D. (2023) Spinal cord repair is modulated by the neurogenic factor Hb-egf under direction of a regeneration-associated enhancer. Nature communications. 14:48574857
- 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
- Nie, C.H., Wan, S.M., Chen, Y.L., Huysseune, A., Wu, Y.M., Zhou, J.J., Hilsdorf, A.W.S., Wang, W.M., Witten, P.E., Lin, Q., Gao, Z.X. (2022) Single-cell transcriptomes and runx2b-/- mutants reveal the genetic signatures of intermuscular bone formation in zebrafish. National science review. 9:nwac152nwac152
- 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
- Pillay, S., Takahashi, H., Carninci, P., Kanhere, A. (2021) Antisense RNAs during early vertebrate development are divided in groups with distinct features. Genome research. 31(6):995-1010
- 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):
- 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
- Jia, S., Wu, X., Wu, Y., Cui, X., Tao, B., Zhu, Z., Hu, W. (2020) Multiple Developmental Defects in sox11a Mutant Zebrafish with Features of Coffin-Siris Syndrome. International journal of biological sciences. 16:3039-3049
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