| WBGene00008140 | SMap | S_parent | Sequence | CHROMOSOME_II |
|---|
| Identity | Version | 3 |
| | Name | CGC_name | xpf-1 | Paper_evidence | WBPaper00024359 |
| | | | | | WBPaper00028727 |
| | | | | | WBPaper00043946 |
| | | | | | WBPaper00043947 |
| | | Sequence_name | C47D12.8 |
| | | Molecular_name | C47D12.8 |
| | | | C47D12.8.1 |
| | | | CE24855 |
| | | | C47D12.8.2 |
| | | Other_name | him-9 | Person_evidence | WBPerson261 |
| | | | CELE_C47D12.8 | Accession_evidence | NDB | BX284602 |
| | | Public_name | xpf-1 |
| | DB_info | Database (11) |
| | Species | Caenorhabditis elegans |
| | History | Version_change | 1 | 26 May 2004 16:54:48 | WBPerson1971 | Event | Imported | Initial conversion from CDS class of WS125 |
| | | | 2 | 11 Oct 2013 12:53:55 | WBPerson2970 | Name_change | CGC_name | xpf-1 |
| | | | | | | | Other_name | xpf-1 removed |
| | | | 3 | 01 Jul 2015 11:12:28 | WBPerson2970 | Event | Acquires_merge | WBGene00001868 |
| | | | | | | Name_change | Other_name | him-9 |
| | | Acquires_merge | WBGene00001868 |
| | Status | Live |
| Gene_info | Biotype | SO:0001217 |
| | Gene_class | xpf |
| | Allele (192) |
| | Legacy_information | e1487aci : self-progeny 5% males 2% nullo-X ova. ES3 (progeny). ME3. NA1. |
| | | See also e1487 |
| | | [C.elegansII] e1487aci : self-progeny 5% males, 2% nullo-X ova. ES3 (progeny). ME3. NA1. [Hodgkin et al. 1979] |
| | Strain (28) |
| | RNASeq_FPKM (74) |
| | GO_annotation (25) |
| | Contained_in_operon | CEOP2572 |
| | Ortholog (38) |
| | Structured_description | Concise_description | xpf-1 encodes an ortholog of the DNA repair protein XPF/ERCC4, which when mutated in humans leads to Xeroderma Pigmentosum (Complementation group F; OMIM:133520); xpf-1 is a core NER (Nuclear Excision Repair) factor (other members being xpa-1, xpg-1, and ercc-1); NER factors remove UV-induced DNA damage and have been demonstrated to be required for both the global genome repair (GGR) and transcription coupled repair (TCR) pathways; XPF-1 activity is essential for the survival of germ cells and somatic tissue following UV irradiation and is necessary for germ cells and embryos to survive even relatively low doses of UV irradiation; mutations in xpf-1, as well as the other NER factors, renders animals hypersensitive to UV light; xpf-1(RNAi) animals are also hypersensitive to ultraviolet radiation, with increased germ cell apoptosis and embryonic lethality; XPF-1 protein interacts with ERCC-1 (an ERCC1 ortholog) in yeast two-hybrid assays; xpf-1 is expressed broadly in both embryonic and postembryonic animals, and is required for embryonic development; xpf-1 is upregulated in dauers, and shares an operon with kel-1 and VF13D12L.3. | Paper_evidence | WBPaper00004805 |
| | | | | | WBPaper00005039 |
| | | | | | WBPaper00024359 |
| | | | | | WBPaper00024497 |
| | | | | | WBPaper00036260 |
| | | | | Person_evidence | WBPerson1684 |
| | | | | Curator_confirmed | WBPerson712 |
| | | | | | WBPerson1823 |
| | | | | | WBPerson567 |
| | | | | Date_last_updated | 26 Jul 2010 00:00:00 |
| | | Automated_description | Enables enzyme binding activity. Involved in DNA damage response; meiotic nuclear division; and regulation of multicellular organismal development. Predicted to be part of nucleotide-excision repair factor 1 complex. Expressed in body wall musculature; embryonic cell; germ cell; and neurons. Used to study Cockayne syndrome; Fanconi anemia; and xeroderma pigmentosum. Human ortholog(s) of this gene implicated in several diseases, including Fanconi anemia complementation group Q; XFE progeroid syndrome; and polyneuropathy due to drug. Is an ortholog of human ERCC4 (ERCC excision repair 4, endonuclease catalytic subunit). | 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:2962 | Homo sapiens | Paper_evidence | WBPaper00060873 |
| | | | | Curator_confirmed | WBPerson324 |
| | | | | Date_last_updated | 05 May 2022 00:00:00 |
| | | DOID:13636 | Homo sapiens | Paper_evidence | WBPaper00060873 |
| | | | | Curator_confirmed | WBPerson324 |
| | | | | Date_last_updated | 05 May 2022 00:00:00 |
| | | DOID:0050427 | Homo sapiens | Paper_evidence | WBPaper00060873 |
| | | | | Curator_confirmed | WBPerson324 |
| | | | | Date_last_updated | 05 May 2022 00:00:00 |
| | Potential_model | DOID:9256 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:3436) |
| | | DOID:0060590 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:3436) |
| | | DOID:0110848 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:3436) |
| | | DOID:1793 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:3436) |
| | | DOID:0111093 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:3436) |
| | | DOID:14184 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:3436) |
| | | DOID:0050427 | Homo sapiens | Inferred_automatically | Inferred by orthology to human genes with DO annotation (HGNC:3436) |
| Models_disease_asserted | WBDOannot00001184 |
| | WBDOannot00001185 |
| | WBDOannot00001186 |
| | WBDOannot00001187 |
| Molecular_info | Corresponding_CDS | C47D12.8 |
| | Corresponding_transcript | C47D12.8.1 |
| | | C47D12.8.2 |
| | Other_sequence (44) |
| | Associated_feature | WBsf034272 |
| | | WBsf658260 |
| | | WBsf658261 |
| | | WBsf658262 |
| | | WBsf976345 |
| | | WBsf989857 |
| | | WBsf989858 |
| | | WBsf989859 |
| | | WBsf1013293 |
| | | WBsf222179 |
| Experimental_info | RNAi_result | WBRNAi00062836 | Inferred_automatically | RNAi_primary |
| | | WBRNAi00042669 | Inferred_automatically | RNAi_primary |
| | | WBRNAi00062837 | Inferred_automatically | RNAi_primary |
| | | WBRNAi00036116 | Inferred_automatically | RNAi_primary |
| | | WBRNAi00012071 | Inferred_automatically | RNAi_primary |
| | | WBRNAi00106933 | Inferred_automatically | RNAi_primary |
| | | WBRNAi00061508 | Inferred_automatically | RNAi_primary |
| | | WBRNAi00111633 | Inferred_automatically | RNAi_primary |
| | Expr_pattern | Chronogram1702 |
| | | Expr3076 |
| | | Expr5529 |
| | | Expr15929 |
| | | Expr1027901 |
| | | Expr1033534 |
| | | Expr1146656 |
| | | Expr2018104 |
| | | Expr2036242 |
| | Drives_construct | WBCnstr00003346 |
| | Regulate_expr_cluster | WBPaper00062497:xpf-1(tm2842)_downregulated |
| | | WBPaper00062497:xpf-1(tm2842)_upregulated |
| | Microarray_results (22) |
| | Expression_cluster | WBPaper00029359_1280 |
| | | WBPaper00029359_1304 |
| | | WBPaper00029359_1325 |
| | | WBPaper00029359_1444 |
| | | WBPaper00029359_1497 |
| | | WBPaper00029359_1504 |
| | | WBPaper00029359_1604 |
| | | WBPaper00029359_1629 |
| | | WBPaper00031040:TGF-beta_adult_downregulated |
| | | WBPaper00036375:enriched_in_PVD_OLL |
| | | WBPaper00040560:hpl-2_embryo_downregulated |
| | | WBPaper00044426:rotenone_24h_downregulated |
| | | WBPaper00044656:tatn-1(qd182)_downregulated |
| | | WBPaper00044736:flat_dev_expression |
| | | WBPaper00044760:germline_specific |
| | | WBPaper00044786:emr-1(RNAi);lem-2(tm1582)_downregulated |
| | | WBPaper00045521:Gender_Neutral |
| | | WBPaper00045571:germline-ablation_downregulated |
| | | WBPaper00048923:Aging_regulated |
| | | WBPaper00048988:neuron_expressed |
| | | WBPaper00049545:jmjd-3.1(+)_downregulated |
| | | WBPaper00050488:20C_vs_25C_regulated_N2_adult |
| | | WBPaper00050488:adult_vs_dauer_regulated_N2_20C |
| | | WBPaper00050522:mafr-1(tm6082)_downregulated |
| | | WBPaper00050859:downregulated_P-granule(-)GFP(+)_vs_control_day2-adult |
| | | WBPaper00050990:hypodermis_enriched |
| | | WBPaper00050990:hypodermis_expressed |
| | | WBPaper00051039:germline_enriched |
| | | WBPaper00051558:aging_regulated |
| | | WBPaper00052884:emb-4(hc60)_downregulated |
| | | WBPaper00053184:sma-2(rax5)_downregulated |
| | | WBPaper00053184:sma-4(rax3)_downregulated |
| | | WBPaper00053302:alovudine_24h_regulated |
| | | WBPaper00053302:stavudine_24h_regulated |
| | | WBPaper00053302:zidovudine_72h_regulated |
| | | WBPaper00053321:PGCs_enriched_NuGen |
| | | WBPaper00055354:Rapamycin-Allantoin_upregulated |
| | | WBPaper00055648:germline_expressed |
| | | WBPaper00055862:antimycin_damt-1(gk961032)_regulated |
| | | WBPaper00055971:nhl-2(ok818)_25C_upregulated |
| | | WBPaper00056443:sek-1(km4)_downregulated |
| | | WBPaper00056826:hmc_biased |
| | | WBPaper00057288:Cold_upregulated_transcript |
| | | WBPaper00058725:sftb-1(cer6)_downregulated |
| | | WBPaper00059356:BAZ-2_SET-6_interacting |
| | | WBPaper00060358:B.thuringiensis_pathogen_regulated_elt-2(RNAi) |
| | | WBPaper00060661:sensory-neuron_depleted |
| | | WBPaper00060683:hlh-11(ko1)_downregulated |
| | | WBPaper00060909:atfs-1(cmh15)_upregulated |
| | | WBPaper00061007:S.aquatilis_downregulated |
| | | WBPaper00061340:M1_parent |
| | | WBPaper00061340:Rectal_cell |
| | | WBPaper00061527:let-99_22239-such-1 |
| | | WBPaper00062159:hda-2(ok1479)_downregulated |
| | | WBPaper00062325:muscle_enriched_coding-RNA |
| | | WBPaper00062497:xpf-1(tm2842)_downregulated |
| | | WBPaper00064088:Day-3-adult_vs_L4_upregulated_fem-3(q20) |
| | | WBPaper00064505:tamoxifen_upregulated |
| | | WBPaper00064716:paraquat_upregulated |
| | | WBPaper00065096:25C_vs_20C_upregulated |
| | | WBPaper00065096:Day10_vs_Day1_upregulated |
| | | WBPaper00065373:Cisplatin_upregulated_WT |
| | | WBPaper00065993:glp-1(e2141)_downregulated |
| | | WBPaper00066110:tetraploid_vs_diploid_downregulated |
| | | WBPaper00066146:germline-inx-14(RNAi)_downregulated_PA14 |
| | | cgc4489_group_2 |
| | | WBPaper00025032:cluster_85 |
| | | WBPaper00025141:N2_Expressed_Genes |
| | | WBPaper00026929:sir-2.1_overexpression_regulated |
| | | WBPaper00031252:AIN-1_IP_enriched |
| | | WBPaper00035084:L2_enriched_AIN-2_IP |
| | | WBPaper00035084:L3_enriched_AIN-2_IP |
| | | WBPaper00035905:FBF-1_Associated |
| | | WBPaper00036286:Pattern_F |
| | | WBPaper00037901:GLD-1_mRNA_targets |
| | | WBPaper00040858:eQTL_age_regulated_developing |
| | | WBPaper00041002:HF_11d_2.0mM_Up |
| | | WBPaper00041606:CE_S.marcescens_regulated |
| | | WBPaper00041606:CE_X.nematophila_regulated |
| | | WBPaper00041906:I-3690_vs_OP50_3d |
| | | WBPaper00041939:control_vs_UVC-EtBr-exposed_48h |
| | | WBPaper00041939:control_vs_UVC-exposed_3h |
| | | WBPaper00041939:EtBr-exposed_vs_UVC-exposed_3h |
| | | WBPaper00045263:0.1mM-paraquat_upregulated |
| | | [cgc5767]:expression_class_M |
| | | [cgc5767]:expression_class_SM |
| | | [cgc6390]:Cluster_F |
| | | [cgc6390]:intrinsic |
| | SAGE_tag | SAGE:tatactggcttcaatac | Strand | Sense |
| | | | Unambiguously_mapped |
| | | SAGE:cgagaattca | Strand | Sense |
| | | | Unambiguously_mapped |
| | | SAGE:cggaagagctcagcgga | Strand | Sense |
| | | | Unambiguously_mapped |
| | | SAGE:acgagagctattttgtc | Strand | Sense |
| | | | Unambiguously_mapped |
| | | SAGE:cgagaattcaacagcga | Strand | Sense |
| | | | Unambiguously_mapped |
| | | SAGE:aatcatttct | Strand | Antisense |
| | | SAGE:acgagagcta | Strand | Sense |
| | | | Unambiguously_mapped |
| | | SAGE:atcgacgtggtcatatt | Strand | Sense |
| | | | Unambiguously_mapped |
| | | SAGE:aagggatctgttgggat | Strand | Antisense |
| | | SAGE:tatactggct | Strand | Sense |
| | | | Unambiguously_mapped |
| | Interaction (123) |
| Map_info | Map | II | Position | 3.99161 |
| | Positive | Positive_clone | C47D12 | Inferred_automatically | From sequence, transcript, pseudogene data |
| | Mapping_data | 2_point | 269 |
| | | Multi_point | 55 |
| | Pseudo_map_position |
| Reference (41) |
| 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 |
