| 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 (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 | WBPaper00031040:TGF-beta_adult_downregulated |
| | | WBPaper00033065:cyc-1(RNAi)_downregulated |
| | | WBPaper00037950:AVA-neuron_embryo_enriched |
| | | WBPaper00037950:AVA-neuron_L1-larva_expressed |
| | | WBPaper00037950:CEP-sheath-cells_Day1-adult_expressed |
| | | WBPaper00037950:intestine_L1-larva_expressed |
| | | WBPaper00040221:DAF-12_target_ALF4 |
| | | WBPaper00044656:tatn-1(qd182)_downregulated |
| | | WBPaper00044736:flat_dev_expression |
| | | WBPaper00044760:germline_specific |
| | | WBPaper00045521:Gender_Neutral |
| | | WBPaper00045774:clk-1_downregulated |
| | | WBPaper00046497:B.thuringiensis_0.5mix_downregulated_12h |
| | | WBPaper00046691:P1_enriched |
| | | WBPaper00047132:skn-1(RNAi)_downregulated_glp-1(ts)-dependent |
| | | WBPaper00048923:Aging_regulated |
| | | WBPaper00048988:neuron_expressed |
| | | WBPaper00049498:npr-1(ur89)_regulated_6 |
| | | WBPaper00049920:Glucose-Diet_downregulated_hyl-2(tm2031) |
| | | WBPaper00049954:BPS_downregulated |
| | | WBPaper00050182:lmn-1(L535P)_upregulated |
| | | WBPaper00050488:adult_vs_dauer_regulated_N2_20C |
| | | WBPaper00050726:OsmoticStress_regulated_Food |
| | | WBPaper00050859:downregulated_P-granule(-)GFP(+)_vs_control_day2-adult |
| | | WBPaper00050990:intestine_enriched |
| | | WBPaper00050990:intestine_expressed |
| | | WBPaper00051039:germline_enriched |
| | | WBPaper00052884:emb-4(hc60)_downregulated |
| | | WBPaper00053184:sma-2(rax5)_downregulated |
| | | WBPaper00053184:sma-4(rax3)_downregulated |
| | | WBPaper00053289:DREAM-target |
| | | WBPaper00053302:zidovudine_72h_regulated |
| | | WBPaper00053308:SMG-2_associated_NMD(-)_upregulated_ClassI |
| | | WBPaper00053321:PGCs_enriched_NuGen |
| | | WBPaper00053388:dauer_regulated_Cluster1 |
| | | WBPaper00053810:daf-2(e1370)_downregulated |
| | | WBPaper00053810:nuo-6(qm200)_downregulated |
| | | WBPaper00055103:thoc-5(wy822)_downregulated |
| | | WBPaper00055482:pmt-2(RNAi)_downregulated |
| | | WBPaper00055565:AVK_enriched |
| | | WBPaper00055648:germline_expressed |
| | | WBPaper00056034:pals-22(jy3)_downregulated |
| | | WBPaper00056090:E.faecalis_downregulated_hpx-2(dg047) |
| | | WBPaper00056090:E.faecalis_downregulated_N2 |
| | | WBPaper00056471:aak-1(tm1944);aak-2(ok524)_downregulated |
| | | WBPaper00056471:S.aureus-4h_downregulated_N2 |
| | | WBPaper00056826:SGP_biased |
| | | WBPaper00057288:Cold_downregulated_transcript |
| | | WBPaper00059356:BAZ-2_SET-6_interacting |
| | | WBPaper00059664:srbc-48(ac23)_downregulated |
| | | WBPaper00060014:set-2(tm1630)_upregulated |
| | | WBPaper00060683:hlh-11(ko1)_downregulated |
| | | WBPaper00061340:ALM_BDU |
| | | WBPaper00061340:ALM_PLM |
| | | WBPaper00061340:B |
| | | WBPaper00061340:RID |
| | | WBPaper00061340:URA_parent |
| | | WBPaper00061341:28C_24h_downregulated |
| | | WBPaper00061341:28C_48h_downregulated |
| | | WBPaper00061527:trm-1-H43I07.2 |
| | | WBPaper00062159:hda-2(ok1479)_downregulated |
| | | WBPaper00062193:hsf-1(RNAi)_downregulated |
| | | WBPaper00062193:skn-1(RNAi)_downregulated |
| | | WBPaper00062325:muscle_depleted_coding-RNA |
| | | WBPaper00064088:Day-3-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141) |
| | | WBPaper00064088:Day-3-adult_vs_L4_downregulated_glp-1(e2141) |
| | | WBPaper00064716:paraquat_upregulated |
| | | WBPaper00065373:Cisplatin_upregulated_WT |
| | | WBPaper00065975:P-body_vs_oocyte_enriched |
| | | WBPaper00065975:P-body_vs_WholeAnimal_enriched |
| | | WBPaper00065993:glp-1(e2141)_downregulated |
| | | WBPaper00066062:xrep-4(lax137)_upregulated |
| | | WBPaper00066146:germline-inx-14(RNAi)_downregulated_PA14 |
| | | cgc4489_group_2 |
| | | WBPaper00025141:N2_Expressed_Genes |
| | | WBPaper00025141:unc-4::GFP_Expressed_Genes |
| | | WBPaper00026929:sir-2.1_overexpression_regulated |
| | | WBPaper00029437:dcr-1_downregulated |
| | | WBPaper00035905:FBF-1_Associated |
| | | WBPaper00036130:mir-243_down_regulated |
| | | WBPaper00036286:Pattern_F |
| | | WBPaper00037611:RNP-8-associated |
| | | WBPaper00038427:lin-54_embryo_changed |
| | | WBPaper00040858:eQTL_regulated_reproductive |
| | | WBPaper00041606:CE_B.thuringiensis-DB27_regulated |
| | | WBPaper00041606:CE_S.marcescens_regulated |
| | | WBPaper00041606:CE_X.nematophila_regulated |
| | | WBPaper00041939:EtBr-exposed_vs_UVC-exposed_3h |
| | | WBPaper00045263:0.1mM-paraquat_upregulated |
| | | WBPaper00048637:lin-35(n745)_starvation_upregulated |
| | | WBPaper00048989:eat-2(ad465)_rapamycin_upregulated |
| | | WBPaper00048989:N2_allantoin_upregulated |
| | | WBPaper00050520:lagr-1(gk327);hyl-1(ok976)_upregulated |
| | | WBPaper00053236:Starvation_regulated_GR1307 |
| | | WBPaper00053236:Starvation_regulated_N2 |
| | | [cgc6390]:intrinsic |
| | 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 |
