WormBase Tree Display for Gene: WBGene00006514
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| WBGene00006514 | SMap | S_parent | Sequence | F44G4 | |||||
|---|---|---|---|---|---|---|---|---|---|
| Identity | Version | 2 | |||||||
| Name | CGC_name | tdp-1 | Person_evidence | WBPerson8505 | |||||
| Sequence_name | F44G4.4 | ||||||||
| Molecular_name | F44G4.4a | ||||||||
| F44G4.4a.1 | |||||||||
| CE02231 | |||||||||
| F44G4.4c | |||||||||
| CE44236 | |||||||||
| F44G4.4b | |||||||||
| F44G4.4c.1 | |||||||||
| Other_name | tag-169 | Person_evidence | WBPerson201 | ||||||
| CELE_F44G4.4 | Accession_evidence | NDB | BX284602 | ||||||
| Public_name | tdp-1 | ||||||||
| DB_info | Database (12) | ||||||||
| Species | Caenorhabditis elegans | ||||||||
| History | Version_change | 1 | 07 Apr 2004 11:29:40 | WBPerson1971 | Event | Imported | Initial conversion from geneace | ||
| 2 | 20 Nov 2008 11:55:56 | WBPerson2970 | Name_change | CGC_name | tdp-1 | ||||
| Other_name | tag-169 | ||||||||
| Status | Live | ||||||||
| Gene_info | Biotype | SO:0001217 | |||||||
| Gene_class | tdp | ||||||||
| Allele (24) | |||||||||
| Possibly_affected_by | WBVar02158431 | ||||||||
| WBVar02158432 | |||||||||
| WBVar02158433 | |||||||||
| WBVar02158434 | |||||||||
| WBVar02158435 | |||||||||
| WBVar02158436 | |||||||||
| WBVar02158437 | |||||||||
| Strain | WBStrain00031640 | ||||||||
| WBStrain00035864 | |||||||||
| WBStrain00054779 | |||||||||
| RNASeq_FPKM (74) | |||||||||
| GO_annotation (26) | |||||||||
| Ortholog (38) | |||||||||
| Paralog (12) | |||||||||
| Structured_description | Concise_description | tdp-1 encodes the C. elegans ortholog of human TAR DNA/RNA binding protein TDP-43 (HGNC:TARDBP); in C. elegans TDP-1 is involved in the response to oxidative stress and age-dependent proteotoxicity; tdp-1 exhibits a dose-dependent effect on lifespan, and is required for the long lifespan and oxidative stress resistance of daf-2 mutants; based on homology to TDP-43, TDP-1 is predicted to have nucleic acid binding activity and function in RNA processing and metabolism; TDP-1 is widely expressed and in unstressed animals is found at low levels in the nucleus; in the presence of oxidative stress, however, TDP-1 levels increase. | Paper_evidence | WBPaper00041295 | |||||
| Curator_confirmed | WBPerson1843 | ||||||||
| WBPerson324 | |||||||||
| Date_last_updated | 31 Oct 2014 00:00:00 | ||||||||
| Automated_description | Enables chromatin binding activity and single-stranded RNA binding activity. Involved in several processes, including RNA splicing; determination of adult lifespan; and hyperosmotic response. Located in nucleus. Expressed in several structures, including body wall musculature; intestine; muscle cell; neurons; and pharynx. Used to study amyotrophic lateral sclerosis type 10. Human ortholog(s) of this gene implicated in Alzheimer's disease; Lewy body dementia; and progressive supranuclear palsy. Is an ortholog of human TARDBP (TAR DNA binding protein). | 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:332 | Homo sapiens | Paper_evidence | WBPaper00036365 | ||||
| Accession_evidence | OMIM | 612069 | |||||||
| Curator_confirmed | WBPerson324 | ||||||||
| Date_last_updated | 21 Feb 2013 00:00:00 | ||||||||
| DOID:0060201 | Homo sapiens | Paper_evidence | WBPaper00064744 | ||||||
| Curator_confirmed | WBPerson324 | ||||||||
| Date_last_updated | 08 Jun 2023 00:00:00 | ||||||||
| Potential_model | DOID:10652 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | |||||
| DOID:0060201 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | ||||||
| DOID:14330 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | ||||||
| DOID:678 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | ||||||
| DOID:12217 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | ||||||
| DOID:332 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | ||||||
| DOID:231 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | ||||||
| DOID:11870 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:11571) | ||||||
| Disease_relevance | Human TAR DNA-binding protein, TDP43 (orthologous to elegans tdp-1), has been associated with several neurodegenerative diseases, including amyotrophic lateral sclerosis (ALS) and frontotemporal lobar dementia (FTLD); ubiquinated inclusions of TDP43 have been found in the affected neurons of ALS, FTLD, as well as Alzheimer''s and Parkinson''s disease patients; modeling TDP43 proteinopathies in the worm employs two strategies: overexpressing mutant human TDP43 in transgenic worms and studying tdp-1, the elegans ortholog of human TDP43; overexpression of human ALS-linked mutant TDP43 in worms causes an uncoordianted phenotype and abnormal motor neuron synapses, characteristic of C. elegans mutants with motorneuron dysfunction; the overexpressed TDP43 localizes to the nucleus; the toxicity of human TDP43 is not due to interference with the endogenous elegans tdp-1/TDP43, as tdp-1 mutants have wild-type movement; human TDP43 toxicity in elegans requires nuclear accumulation of the full length protein and the presence of the TDP43 RNA recognition domains; TDP-43 neurotoxicity is independent of activity of the cell death caspase CED-3, further, phosphorylation of TDP-43 at serine residues drives mutant TDP-43 toxicity; studies with tdp-1, the ortholog of human TDP43 in elegans, indicate that tdp-1/TDP43 is a stress-responsive gene that functions in the Insulin/IGF pathway to regulate longevity, and is required for resistance to oxidative and osmotic stress; tdp-1 is also induced by the unfolded protein response (UPR) triggered by toxic proteins like mutant TDP43 itself, or ALS-linked mutated FUS, a nucleic acid binding protein related to TDP43. | Homo sapiens | Paper_evidence | WBPaper00036365 | |||||
| WBPaper00041295 | |||||||||
| WBPaper00040603 | |||||||||
| WBPaper00037845 | |||||||||
| Curator_confirmed | WBPerson324 | ||||||||
| Date_last_updated | 30 Oct 2013 00:00:00 | ||||||||
| Models_disease_in_annotation | WBDOannot00000300 | ||||||||
| Models_disease_asserted | WBDOannot00001383 | ||||||||
| WBDOannot00001384 | |||||||||
| Molecular_info | Corresponding_CDS | F44G4.4a | |||||||
| F44G4.4c | |||||||||
| Corresponding_CDS_history | F44G4.4b:wp261 | ||||||||
| Corresponding_transcript | F44G4.4b | ||||||||
| F44G4.4a.1 | |||||||||
| F44G4.4c.1 | |||||||||
| Other_sequence (23) | |||||||||
| Associated_feature | WBsf644524 | ||||||||
| WBsf644525 | |||||||||
| WBsf658043 | |||||||||
| WBsf658044 | |||||||||
| WBsf658045 | |||||||||
| WBsf988895 | |||||||||
| WBsf988896 | |||||||||
| WBsf1012783 | |||||||||
| Experimental_info | RNAi_result | WBRNAi00062253 | Inferred_automatically | RNAi_primary | |||||
| WBRNAi00014968 | Inferred_automatically | RNAi_primary | |||||||
| WBRNAi00047340 | Inferred_automatically | RNAi_primary | |||||||
| WBRNAi00032268 | Inferred_automatically | RNAi_primary | |||||||
| WBRNAi00047341 | Inferred_automatically | RNAi_primary | |||||||
| WBRNAi00092583 | Inferred_automatically | RNAi_primary | |||||||
| Expr_pattern | Expr9483 | ||||||||
| Expr9920 | |||||||||
| Expr10097 | |||||||||
| Expr1016813 | |||||||||
| Expr1032669 | |||||||||
| Expr1151193 | |||||||||
| Expr2017368 | |||||||||
| Expr2035505 | |||||||||
| Drives_construct | WBCnstr00009682 | ||||||||
| WBCnstr00014790 | |||||||||
| WBCnstr00037891 | |||||||||
| Construct_product | WBCnstr00007042 | ||||||||
| WBCnstr00007043 | |||||||||
| WBCnstr00007044 | |||||||||
| WBCnstr00014048 | |||||||||
| WBCnstr00014790 | |||||||||
| WBCnstr00019743 | |||||||||
| WBCnstr00037891 | |||||||||
| Regulate_expr_cluster | WBPaper00040603:tdp-1(lf)_down_vs_N2_FC_1.2 | ||||||||
| WBPaper00040603:tdp-1(lf)_down_vs_N2_FC_1.5 | |||||||||
| WBPaper00040603:tdp-1(lf)_up_vs_N2_FC_1.2 | |||||||||
| WBPaper00040603:tdp-1(lf)_up_vs_N2_FC_1.5 | |||||||||
| WBPaper00046012:tdp-1(ok803)_downregulated | |||||||||
| WBPaper00046012:tdp-1(ok803)_upregulated | |||||||||
| WBPaper00066004:tdp-1(csb38)_downregulated | |||||||||
| WBPaper00066004:tdp-1(csb38)_upregulated | |||||||||
| Antibody | WBAntibody00002583 | ||||||||
| WBAntibody00002820 | |||||||||
| Microarray_results (32) | |||||||||
| Expression_cluster (100) | |||||||||
| Interaction (53) | |||||||||
| WBProcess | WBbiopr:00000001 | ||||||||
| WBbiopr:00000046 | |||||||||
| WBbiopr:00000052 | |||||||||
| WBbiopr:00000061 | |||||||||
| WBbiopr:00000065 | |||||||||
| Map_info | Map | II | Position | 0.969489 | Error | 0.006139 | |||
| Positive | Positive_clone | F44G4 | Inferred_automatically | From sequence, transcript, pseudogene data | |||||
| Mapping_data | Multi_point | 4858 | |||||||
| 4825 | |||||||||
| Pseudo_map_position | |||||||||
| Reference (37) | |||||||||
| 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 |
