rbpjb encodes Su(H)B, one of two zebrafish paralogs (rbpja and rbpjb, products of the teleost genome duplication) of the CSL (CBF1/RBPJ, Suppressor of Hairless, LAG-1) transcription factor, the DNA-binding effector of canonical Notch signalling. The protein has the conserved CSL architecture: an N-terminal Rel-homology region and beta-trefoil domain that together bind the C(T/A)GTGGGAA-type RBPJ motif, and a C-terminal Ig-like domain. In the nucleus it binds the RAM and ankyrin regions of the Notch intracellular domain (NICD) and recruits Mastermind to form the NICD-CSL-MAML activation complex that induces Notch target genes (e.g. her/hey genes); in the absence of NICD, CSL proteins act with corepressors to repress targets. In zebrafish, Rbpj binds NICD and also physically interacts with Wt1a and Foxc1a to control podocyte formation, and Su(H) knockdown disrupts neurogenic lateral inhibition, the somite segmentation clock and its bilateral symmetry (via tailbud cyp26a1), left-right asymmetry, heart development and arterial/angiogenic behaviour. Many morpholino studies target both paralogs, so paralog-specific roles are not fully resolved.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0000122 negative regulation of transcription by RNA polymerase II | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: ARBA negative regulation of transcription by RNA polymerase II. Reason: CSL proteins repress targets with corepressors in the absence of NICD; plausible by homology but not tested for zebrafish Rbpjb. |
| GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding | IBA GO_REF:0000033 | ACCEPT | Summary: RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA). Reason: CSL proteins bind RBPJ motifs in target enhancers; conserved DNA-binding residues. |
| GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding | IEA GO_REF:0000120 | ACCEPT | Summary: RNA polymerase II cis-regulatory region sequence-specific DNA binding (IEA). Reason: CSL proteins bind RBPJ motifs in target enhancers; conserved DNA-binding residues. |
| GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific | IBA GO_REF:0000033 | ACCEPT | Summary: IBA from PANTHER:PTN000071433. Reason: Core molecular function of CSL proteins; ancestral node placement is sound. |
| GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific | IEA GO_REF:0000120 | ACCEPT | Summary: IEA DNA-binding transcription activator activity, RNA polymerase II-specific. Reason: Activator function in complex with NICD and MAML. |
| GO:0001756 somitogenesis | IGI PMID:16545363 her1 and her13.2 are jointly required for somitic border spe... | KEEP AS NON CORE | Summary: somitogenesis (IGI, PMID:16545363): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0001756 somitogenesis | IMP PMID:17098223 Coordination of symmetric cyclic gene expression during somi... | KEEP AS NON CORE | Summary: Su(H) knockdown disrupts the segmentation oscillator (Echeverri and Oates 2007). Reason: Developmental context; Notch/CSL drives her1/her7/dlc cyclic transcription. Supporting Evidence: PMID:17098223 Combined Su(H) gene knockdown caused defects in visceral left/right asymmetry, neurogenic lateral inhibition, and symmetrical failure of the segmentation oscillator. |
| GO:0002040 sprouting angiogenesis | IGI PMID:17259972 Notch signalling limits angiogenic cell behaviour in develop... | KEEP AS NON CORE | Summary: sprouting angiogenesis (IGI, PMID:17259972): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0002193 MAML1-RBP-Jkappa- ICN1 complex | IBA GO_REF:0000033 | ACCEPT | Summary: MAML1-RBP-Jkappa-ICN1 complex (IBA from PANTHER:PTN002580211). Reason: The NICD-CSL-MAML ternary complex is the conserved activation complex; the term label names human subunits but denotes the orthologous complex. |
| GO:0003140 determination of left/right asymmetry in lateral mesoderm | IGI PMID:20876649 Notch signalling regulates left-right asymmetry through cili... | KEEP AS NON CORE | Summary: determination of left/right asymmetry in lateral mesoderm (IGI, PMID:20876649): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0003677 DNA binding | IEA GO_REF:0000002 | ACCEPT | Summary: InterPro DNA binding. Reason: Correct, general. |
| GO:0003700 DNA-binding transcription factor activity | IEA GO_REF:0000002 | ACCEPT | Summary: InterPro DNA-binding transcription factor activity. Reason: Correct, general parent of the RNA polymerase II-specific term. |
| GO:0005634 nucleus | IBA GO_REF:0000033 | ACCEPT | Summary: Nucleus (IBA; IBA from PANTHER:PTN000071433). Reason: CSL factors are nuclear DNA-binding transcription factors. |
| GO:0005634 nucleus | IEA GO_REF:0000120 | ACCEPT | Summary: Nucleus (IEA; IBA from PANTHER:PTN000071433). Reason: CSL factors are nuclear DNA-binding transcription factors. |
| GO:0005667 transcription regulator complex | IEA GO_REF:0000117 | ACCEPT | Summary: ARBA transcription regulator complex. Reason: Rbpj functions within NICD/MAML activator and corepressor complexes. |
| GO:0006355 regulation of DNA-templated transcription | IEA GO_REF:0000002 | ACCEPT | Summary: InterPro regulation of DNA-templated transcription. Reason: Correct, general. |
| GO:0006357 regulation of transcription by RNA polymerase II | IEA GO_REF:0000002 | ACCEPT | Summary: InterPro regulation of transcription by RNA polymerase II. Reason: Correct, general. |
| GO:0007219 Notch signaling pathway | IBA GO_REF:0000033 | ACCEPT | Summary: Notch signaling pathway (IBA from PANTHER:PTN002580211). Reason: Core process; Rbpj is the DNA-binding effector of canonical Notch signalling. Supporting Evidence: PMID:21871448 Wt1a, Foxc1a, and Rbpj can physically interact with each other, whereas only Rbpj binds to the Notch intracellular domain (NICD) |
| GO:0007221 positive regulation of transcription of Notch receptor target | IEA GO_REF:0000117 | ACCEPT | Summary: ARBA positive regulation of transcription of Notch receptor target. Reason: Defining process of CSL factors. |
| GO:0007368 determination of left/right symmetry | IGI PMID:17098223 Coordination of symmetric cyclic gene expression during somi... | KEEP AS NON CORE | Summary: determination of left/right symmetry (IGI, PMID:17098223): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0007507 heart development | IGI PMID:17098223 Coordination of symmetric cyclic gene expression during somi... | KEEP AS NON CORE | Summary: heart development (IGI, PMID:17098223): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0007507 heart development | IMP PMID:17098223 Coordination of symmetric cyclic gene expression during somi... | KEEP AS NON CORE | Summary: heart development (IMP, PMID:17098223): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0009653 anatomical structure morphogenesis | IEA GO_REF:0000117 | MARK AS OVER ANNOTATED | Summary: ARBA anatomical structure morphogenesis. Reason: Uninformative high-level developmental term. |
| GO:0022008 neurogenesis | IGI PMID:17098223 Coordination of symmetric cyclic gene expression during somi... | KEEP AS NON CORE | Summary: neurogenesis (IGI, PMID:17098223): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0022008 neurogenesis | IMP PMID:17098223 Coordination of symmetric cyclic gene expression during somi... | KEEP AS NON CORE | Summary: neurogenesis (IMP, PMID:17098223): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0030325 adrenal gland development | IGI PMID:21871448 Wt1a, Foxc1a, and the Notch mediator Rbpj physically interac... | KEEP AS NON CORE | Summary: adrenal gland development (IGI, PMID:21871448): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0039021 pronephric glomerulus development | IGI PMID:21871448 Wt1a, Foxc1a, and the Notch mediator Rbpj physically interac... | KEEP AS NON CORE | Summary: pronephric glomerulus development (IGI, PMID:21871448): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0039021 pronephric glomerulus development | IGI PMID:21871448 Wt1a, Foxc1a, and the Notch mediator Rbpj physically interac... | KEEP AS NON CORE | Summary: pronephric glomerulus development (IGI, PMID:21871448): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0039022 pronephric duct development | IGI PMID:21871448 Wt1a, Foxc1a, and the Notch mediator Rbpj physically interac... | KEEP AS NON CORE | Summary: pronephric duct development (IGI, PMID:21871448): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0048513 animal organ development | IEA GO_REF:0000117 | MARK AS OVER ANNOTATED | Summary: ARBA animal organ development. Reason: Uninformative high-level developmental term. |
| GO:0060429 epithelium development | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: ARBA epithelium development. Reason: General developmental context (e.g. pronephric podocytes and duct). |
| GO:0060840 artery development | IGI PMID:23818617 Analysis of Dll4 regulation reveals a combinatorial role for... | KEEP AS NON CORE | Summary: artery development (IGI, PMID:23818617): phenotype of Su(H)/rbpj knockdown reflecting loss of canonical Notch transcriptional output in this developmental context. Reason: Downstream developmental consequence of the core CSL transcription factor activity. Morpholinos in these studies may target both rbpj paralogs; the curator's annotation is not disputed. Supporting Evidence: file:DANRE/rbpjb/rbpjb-deep-research-falcon.md The available literature confirms this paralog pair but rarely distinguishes their individual biochemical or developmental |
| GO:0072149 podocyte cell fate commitment | IGI PMID:21871448 Wt1a, Foxc1a, and the Notch mediator Rbpj physically interac... | KEEP AS NON CORE | Summary: Podocyte cell fate commitment (IGI with wt1a/foxc1a; O'Brien et al. 2011). Reason: Developmental context of Notch/Rbpj transcriptional activity. Supporting Evidence: PMID:21871448 Wt1a, Foxc1a, and Rbpj can physically interact with each other, whereas only Rbpj binds to the Notch intracellular domain (NICD) |
| GO:0072149 podocyte cell fate commitment | IGI PMID:21871448 Wt1a, Foxc1a, and the Notch mediator Rbpj physically interac... | KEEP AS NON CORE | Summary: Podocyte cell fate commitment (IGI with wt1a/foxc1a; O'Brien et al. 2011). Reason: Developmental context of Notch/Rbpj transcriptional activity. Supporting Evidence: PMID:21871448 Wt1a, Foxc1a, and Rbpj can physically interact with each other, whereas only Rbpj binds to the Notch intracellular domain (NICD) |
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Download this section (compressed HTML)Q: What are the respective contributions of rbpja and rbpjb (Su(H)1/Su(H)2) to Notch target activation in the PSM, neural tube and vasculature, given that rbpja currently lacks an active UniProtKB entry?
Q: Does zebrafish Rbpjb recruit corepressors (e.g. SHARP/Mint homologs) to repress Notch targets in the absence of NICD?
Experiment: Paralog-specific CRISPR mutants of rbpja and rbpjb with a Tp1/12xCSL Notch reporter to quantify each paralog's contribution to Notch target activation.
Experiment: ChIP-seq of tagged Rbpjb in somitogenesis-stage embryos to map direct targets (her1, her7, dlc, cyp26a1).
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