WormBase Tree Display for Gene: WBGene00008877
expand all nodes | collapse all nodes | view schema
WBGene00008877 | SMap | S_parent | Sequence | F16A11 | ||
---|---|---|---|---|---|---|
Identity (6) | ||||||
Gene_info | Biotype | SO:0001217 | ||||
Gene_class | rtcb | |||||
Allele (31) | ||||||
Possibly_affected_by | WBVar02157267 | |||||
Strain | WBStrain00036319 | |||||
WBStrain00050273 | ||||||
RNASeq_FPKM (74) | ||||||
GO_annotation (31) | ||||||
Contained_in_operon | CEOP1932 | |||||
Ortholog (37) | ||||||
Structured_description | Concise_description | rtcb-1 encodes the C. elegans ortholog of the mammalian tRNA splicing ligase RTCB; in C. elegans RTCB-1 is required for the ligation of tRNA halves during pre-tRNA processing, and for ligation of mRNAs, including the xbp-1 mRNA that is critical for proper execution of the endoplasmic reticulum unfolded protein response; when expressed in intestinal cells, an RTCB-1 reporter localizes to both the nucleus and the cytoplasm. | Paper_evidence | WBPaper00045971 | ||
Curator_confirmed | WBPerson1843 | |||||
Date_last_updated | 28 Jan 2015 00:00:00 | |||||
Automated_description | Enables RNA ligase (ATP) activity. Involved in IRE1-mediated unfolded protein response and tRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate. Acts upstream of or within with a positive effect on germ cell development and vulval development. Located in cytoplasm and nucleus. Used to study Parkinson's disease. Is an ortholog of human RTCB (RNA 2',3'-cyclic phosphate and 5'-OH ligase). | Paper_evidence | WBPaper00065943 | |||
Curator_confirmed | WBPerson324 | |||||
WBPerson37462 | ||||||
Inferred_automatically | This description was generated automatically by a script based on data from the WS291 version of WormBase | |||||
Date_last_updated | 29 Nov 2023 00:00:00 | |||||
Disease_info | Experimental_model | DOID:14330 | Homo sapiens | Paper_evidence | WBPaper00031384 | |
WBPaper00046051 | ||||||
Curator_confirmed | WBPerson324 | |||||
Date_last_updated | 24 Jul 2013 00:00:00 | |||||
Disease_relevance | In an elegans model of Parkinson''s disease, where human alpha-synuclein was overexpressed, RNA interference studies showed that the elegans rtcb-1 (contains an RNA-binding motif, ortholog to human HSPC117 protein, a component of RNA trafficking granules in neurons), significantly protected against age- and dose-dependent degeneration in the dopamine neurons of transgenic worms; further the RNA ligase activity of rtcb-1 is required for neuroprotection, which is mediated via the splicing of the xbp-1/HAC1 mRNA in the unfolded protein response pathway; this model highlights the intersection of RNA processing and proteostasis in mediating neuroprotection; it also allows the identification of human modifier proteins of alpha-synuclein dependent misfolding and neurodegeneration, these proteins may also be new potential targets for therapeutic intervention. | Homo sapiens | Paper_evidence | WBPaper00031384 | ||
WBPaper00046051 | ||||||
Curator_confirmed | WBPerson324 | |||||
Date_last_updated | 04 Feb 2015 00:00:00 | |||||
Models_disease_in_annotation | WBDOannot00000215 | |||||
Molecular_info | Corresponding_CDS | F16A11.2a | ||||
Corresponding_transcript | F16A11.2b | |||||
F16A11.2a.1 | ||||||
Other_sequence (89) | ||||||
Experimental_info | RNAi_result | WBRNAi00003394 | Inferred_automatically | RNAi_primary | ||
WBRNAi00025118 | Inferred_automatically | RNAi_primary | ||||
WBRNAi00076309 | Inferred_automatically | RNAi_primary | ||||
WBRNAi00065397 | Inferred_automatically | RNAi_primary | ||||
WBRNAi00025117 | Inferred_automatically | RNAi_primary | ||||
WBRNAi00044772 | Inferred_automatically | RNAi_primary | ||||
WBRNAi00008148 | Inferred_automatically | RNAi_primary | ||||
WBRNAi00116595 | Inferred_automatically | RNAi_primary | ||||
Expr_pattern | Chronogram686 | |||||
Expr5773 | ||||||
Expr12080 | ||||||
Expr12738 | ||||||
Expr1018785 | ||||||
Expr1033870 | ||||||
Expr1148737 | ||||||
Expr2015570 | ||||||
Expr2033805 | ||||||
Drives_construct | WBCnstr00003232 | |||||
Construct_product | WBCnstr00006218 | |||||
WBCnstr00006225 | ||||||
WBCnstr00019835 | ||||||
WBCnstr00020144 | ||||||
WBCnstr00022738 | ||||||
WBCnstr00022739 | ||||||
Microarray_results (17) | ||||||
Expression_cluster (96) | ||||||
Interaction | WBInteraction000242604 | |||||
WBInteraction000288404 | ||||||
WBInteraction000330452 | ||||||
WBInteraction000370713 | ||||||
WBInteraction000444571 | ||||||
WBInteraction000524592 | ||||||
Map_info | Map | I | Position | 3.75935 | ||
Positive | Positive_clone | F16A11 | Inferred_automatically | From sequence, transcript, pseudogene data | ||
Pseudo_map_position | ||||||
Reference (13) | ||||||
Remark | Map position created from combination of previous interpolated map position (based on known location of sequence) and allele information. Therefore this is not a genetic map position based on recombination frequencies or genetic experiments. This was done on advice of the CGC. | CGC_data_submission | ||||
Method | Gene |