Gene
sf3b1
- ID
- ZDB-GENE-040827-3
- Name
- splicing factor 3b, subunit 1
- Symbol
- sf3b1 Nomenclature History
- Previous Names
-
- tst
- wu:fb99f09
- Type
- protein_coding_gene
- Location
- Chr: 9 Mapping Details/Browsers
- Description
- Predicted to enable mRNA binding activity. Acts upstream of or within several processes, including hemopoiesis; melanocyte differentiation; and neural crest cell development. Predicted to be located in chromatin and nuclear speck. Predicted to be part of U2 snRNP and spliceosomal complex. Is expressed in brain; neural tube; and trunk. Human ortholog(s) of this gene implicated in hepatocellular carcinoma and myelodysplastic syndrome. Orthologous to human SF3B1 (splicing factor 3b subunit 1).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 3 figures from 2 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- IMAGE:7145777 (1 image)
Wild Type Expression Summary
- All Phenotype Data
- 20 figures from 6 publications
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| b460 | Allele with one point mutation | Unknown | Unknown | not specified | |
| hi3394aTg | Transgenic insertion | Intron 1 | Premature Stop | DNA | |
| la010260Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| la016554Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa5549 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa21516 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa27426 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa31725 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa44706 | Allele with one point mutation | Unknown | Unknown | ENU |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-sf3b1 | Keatinge et al., 2021 | |
| CRISPR2-sf3b1 | Keatinge et al., 2021 | |
| MO1-sf3b1 | N/A | An et al., 2012 |
| MO2-sf3b1 | N/A | (3) |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| myelodysplastic syndrome | Alliance | Myelodysplastic syndrome, somatic | 614286 |
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Domain, Family, and Site Summary
| Type | InterPro ID | Name |
|---|---|---|
| Domain | IPR015016 | Splicing factor 3B subunit 1 |
| Domain | IPR054573 | Phosphatase PP2A regulatory subunit A/Splicing factor 3B subunit 1-like, HEAT repeat |
| Family | IPR038737 | Splicing factor 3B subunit 1-like |
| Homologous_superfamily | IPR011989 | Armadillo-like helical |
| Homologous_superfamily | IPR016024 | Armadillo-type fold |
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Domain Details Per Protein
| Protein | Additional Resources | Length | Armadillo-like helical | Armadillo-type fold | Phosphatase PP2A regulatory subunit A/Splicing factor 3B subunit 1-like, HEAT repeat | Splicing factor 3B subunit 1 | Splicing factor 3B subunit 1-like |
|---|---|---|---|---|---|---|---|
| UniProtKB:A0A8M3B2S8 | InterPro | 160 | |||||
| UniProtKB:F1QQZ1 | InterPro | 1315 | |||||
| UniProtKB:A0A8M2BF86 | InterPro | 1161 | |||||
| UniProtKB:A0A8M3AW70 | InterPro | 146 | |||||
| UniProtKB:A0A8M2BF81 | InterPro | 1272 |
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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 | DKEY-83M22 | ZFIN Curated Data | |
| Encodes | EST | fb99f09 | ZFIN Curated Data | |
| Encodes | EST | IMAGE:7145777 | Thisse et al., 2004 | |
| Encodes | EST | wz10640 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:XM_679219 (1) | 4392 nt | ||
| Genomic | GenBank:BX530407 (1) | 292409 nt | ||
| Polypeptide | UniProtKB:F1QQZ1 (1) | 1315 aa |
- Potts, K.S., Cameron, R.C., Metidji, A., Ghazale, N., Wallace, L., Leal-Cervantes, A.I., Palumbo, R., Barajas, J.M., Gupta, V., Aluri, S., Pradhan, K., Myers, J.A., McKinstry, M., Bai, X., Choudhary, G.S., Shastri, A., Verma, A., Obeng, E.A., Bowman, T.V. (2022) Splicing factor deficits render hematopoietic stem and progenitor cells sensitive to STAT3 inhibition. Cell Reports. 41:111825111825
- Keatinge, M., Tsarouchas, T.M., Munir, T., Porter, N.J., Larraz, J., Gianni, D., Tsai, H.H., Becker, C.G., Lyons, D.A., Becker, T. (2021) CRISPR gRNA phenotypic screening in zebrafish reveals pro-regenerative genes in spinal cord injury. PLoS Genetics. 17:e1009515
- De La Garza, A., Cameron, R.C., Gupta, V., Fraint, E., Nik, S., Bowman, T.V. (2019) The splicing factor Sf3b1 regulates erythroid maturation and proliferation via TGFβ signaling in zebrafish. Blood advances. 3:2093-2104
- Sorrells, S., Nik, S., Casey, M., Cameron, R.C., Truong, H., Toruno, C., Gulfo, M., Lowe, A., Jette, C., Stewart, R.A., Bowman, T.V. (2018) Spliceosomal components protect embryonic neurons from R-loop-mediated DNA damage and apoptosis. Disease models & mechanisms. 11(2)
- De La Garza, A., Cameron, R.C., Nik, S., Payne, S.G., Bowman, T.V. (2016) The Spliceosomal Component Sf3b1 is Essential for Hematopoietic Differentiation in Zebrafish. Experimental hematology. 44(9):826-837.e4
- 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
- Li, J.T., Hou, G.Y., Kong, X.F., Li, C.Y., Zeng, J.M., Li, H.D., Xiao, G.B., Li, X.M., Sun, X.W. (2015) The fate of recent duplicated genes following a fourth-round whole genome duplication in a tetraploid fish, common carp (Cyprinus carpio). Scientific Reports. 5:8199
- 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
- An, M., and Henion, P.D. (2012) The zebrafish sf3b1(b460) mutant reveals differential requirements for the sf3b1 pre-mRNA processing gene during neural crest development. The International journal of developmental biology. 56(4):223-237
- Yeo, G.H., Cheah, F.S., Winkler, C., Jabs, E.W., Venkatesh, B., and Chong, S.S. (2009) Phylogenetic and evolutionary relationships and developmental expression patterns of the zebrafish twist gene family. Development genes and evolution. 219(6):289-300
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