WormBase Tree Display for Gene: WBGene00008877
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| WBGene00008877 | SMap | S_parent | Sequence | F16A11 | |||||
|---|---|---|---|---|---|---|---|---|---|
| Identity | Version | 2 | |||||||
| Name | CGC_name | rtcb-1 | Person_evidence | WBPerson236 | |||||
| Sequence_name | F16A11.2 | ||||||||
| Molecular_name | F16A11.2a | ||||||||
| F16A11.2a.1 | |||||||||
| CE23663 | |||||||||
| F16A11.2b | |||||||||
| Other_name | CELE_F16A11.2 | Accession_evidence | NDB | BX284601 | |||||
| Public_name | rtcb-1 | ||||||||
| DB_info | Database (12) | ||||||||
| Species | Caenorhabditis elegans | ||||||||
| History | Version_change | 1 | 26 May 2004 16:54:49 | WBPerson1971 | Event | Imported | Initial conversion from CDS class of WS125 | ||
| 2 | 28 Jan 2015 11:26:55 | WBPerson2970 | Name_change | CGC_name | rtcb-1 | ||||
| Status | Live | ||||||||
| 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 | FC548061.1 | ||||||||
| FG581780.1 | |||||||||
| Oden_isotig01137 | |||||||||
| Oden_isotig01120 | |||||||||
| Tcol_isotig18200 | |||||||||
| HSC00111_1 | |||||||||
| JI470891.1 | |||||||||
| Oden_isotig01119 | |||||||||
| GR13880 | |||||||||
| Oden_isotig01116 | |||||||||
| TSC00692_1 | |||||||||
| MC05209 | |||||||||
| ES561149.1 | |||||||||
| Oden_isotig01128 | |||||||||
| Dviv_isotig02951 | |||||||||
| Dviv_isotig02938 | |||||||||
| Oden_isotig01122 | |||||||||
| DA00082 | |||||||||
| EX546469.1 | |||||||||
| MCC05879_1 | |||||||||
| ACC01818_1 | |||||||||
| Oden_isotig01118 | |||||||||
| MH09210 | |||||||||
| Tcol_isotig04358 | |||||||||
| Oden_isotig01115 | |||||||||
| JI478603.1 | |||||||||
| Dviv_isotig02942 | |||||||||
| NBC00578_1 | |||||||||
| JI462475.1 | |||||||||
| JI473760.1 | |||||||||
| HS00578 | |||||||||
| Dviv_isotig02946 | |||||||||
| Tcir_isotig03800 | |||||||||
| Acan_isotig07664 | |||||||||
| FC543951.1 | |||||||||
| NB08151 | |||||||||
| Oden_isotig01127 | |||||||||
| Oden_isotig01123 | |||||||||
| JI166472.1 | |||||||||
| GRC03143_1 | |||||||||
| Dviv_isotig02947 | |||||||||
| CBC08971_1 | |||||||||
| Tcol_isotig04360 | |||||||||
| Dviv_isotig02950 | |||||||||
| Oden_isotig01114 | |||||||||
| Dviv_isotig02945 | |||||||||
| Dviv_isotig02948 | |||||||||
| FC550022.1 | |||||||||
| Tcol_isotig04361 | |||||||||
| FC546013.1 | |||||||||
| Hbac_isotig03086 | |||||||||
| Dviv_isotig02940 | |||||||||
| Oden_isotig01124 | |||||||||
| CJC02652_1 | |||||||||
| JI472011.1 | |||||||||
| TS00636 | |||||||||
| TSC11556_1 | |||||||||
| HGC10858_1 | |||||||||
| MP00391 | |||||||||
| FC544743.1 | |||||||||
| Oden_isotig01126 | |||||||||
| JI476541.1 | |||||||||
| Tcol_isotig04357 | |||||||||
| Dviv_isotig02941 | |||||||||
| Tcir_isotig32263 | |||||||||
| MHC06079_1 | |||||||||
| Oden_isotig01117 | |||||||||
| Tcir_isotig31835 | |||||||||
| MPC00135_1 | |||||||||
| Dviv_isotig02935 | |||||||||
| Oden_isotig01121 | |||||||||
| Dviv_isotig02939 | |||||||||
| Dviv_isotig02949 | |||||||||
| Oden_isotig01138 | |||||||||
| Tcol_isotig04356 | |||||||||
| Oden_isotig01125 | |||||||||
| Tcir_isotig03801 | |||||||||
| Dviv_isotig02944 | |||||||||
| EX557434.1 | |||||||||
| Dviv_isotig02936 | |||||||||
| Dviv_isotig02943 | |||||||||
| EX546256.1 | |||||||||
| JI483143.1 | |||||||||
| Dviv_isotig02952 | |||||||||
| Dviv_isotig02937 | |||||||||
| HG00260 | |||||||||
| FC555277.1 | |||||||||
| Tcol_isotig04359 | |||||||||
| DAC01910_1 | |||||||||
| 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 |
