WormBase Tree Display for Gene: WBGene00003421

WBGene00003421 Evidence: CGC_data_submission
  SMap: S_parent: Sequence: F09E8
  Identity: Version: 1
    Name: CGC_name: msh-5 Person_evidence: WBPerson1547
      Sequence_name: F09E8.3
      Molecular_name: F09E8.3a
        F09E8.3a.1
        CE26678
        F09E8.3b
        CE49987
        F09E8.3b.1
      Other_name: CELE_F09E8.3 Accession_evidence: NDB BX284604
      Public_name: msh-5
    DB_info: Database: AceView gene 4N927
        WormQTL gene WBGene00003421
        WormFlux gene WBGene00003421
        NDB locus_tag CELE_F09E8.3
        Panther gene CAEEL|WormBase=WBGene00003421|UniProtKB=Q19272
          family PTHR11361
        NCBI gene 178268
        RefSeq protein NM_001380506.1
            NM_070130.8
        SwissProt UniProtAcc Q19272
        UniProt_GCRP UniProtAcc Q19272
        OMIM gene 603382
    Species: Caenorhabditis elegans
    History: Version_change: 1 07 Apr 2004 11:29:31 WBPerson1971 Event: Imported: Initial conversion from geneace
    Status: Live
  Gene_info: Biotype: SO:0001217
    Gene_class: msh
    Allele (169)
    Legacy_information: [Kelly KO, Villeneuve AM ] me23 homozygotes viable hermaphrodite, morphologically normal; 98% of eggs fail to hatch, Him: 42% of viable progeny are male. me45 similar. Cloned: F09E8.3, homologous to budding yeast MSH5.
    Strain: WBStrain00000279
    RNASeq_FPKM (74)
    GO_annotation (20)
    Ortholog (36)
    Paralog: WBGene00001872 Caenorhabditis elegans From_analysis: Panther
            WormBase-Compara
      WBGene00003418 Caenorhabditis elegans From_analysis: Panther
            WormBase-Compara
      WBGene00003422 Caenorhabditis elegans From_analysis: Panther
            WormBase-Compara
    Structured_description: Concise_description: msh-5 encodes a germline-specific homolog of the yeast and mammalian DNA mismatch repair protein MSH5 (MutS-family) that is required for crossing over and chiasma formation during Caenorhabditis elegans meiosis; inactivation of both rad-51 and msh-5 induces chromosome fragmentation, not seen with inactivation of either gene alone. Paper_evidence: WBPaper00004377
            WBPaper00004424
            WBPaper00005134
          Curator_confirmed: WBPerson567
          Date_last_updated: 17 Jun 2004 00:00:00
      Automated_description: Predicted to enable double-stranded DNA binding activity. Involved in chiasma assembly. Located in nucleus. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma; primary ovarian insufficiency 13; and spermatogenic failure. Is an ortholog of human MSH5 (mutS homolog 5). 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: Potential_model: DOID:0111910 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:7328)
      DOID:3908 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:7328)
      DOID:0080870 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:7328)
  Molecular_info: Corresponding_CDS: F09E8.3a
      F09E8.3b
    Corresponding_CDS_history: F09E8.3:wp37
    Corresponding_transcript: F09E8.3a.1
      F09E8.3b.1
    Other_sequence: AF070070
      TMC02651_1
      JI167893.1
      BXC01774_1
      TM03704
    Associated_feature: WBsf1018496
      WBsf229395
  Experimental_info: RNAi_result: WBRNAi00030712 Inferred_automatically: RNAi_primary
      WBRNAi00001814 Inferred_automatically: RNAi_primary
      WBRNAi00012983 Inferred_automatically: RNAi_primary
      WBRNAi00012984 Inferred_automatically: RNAi_primary
      WBRNAi00008131 Inferred_automatically: RNAi_primary
      WBRNAi00044136 Inferred_automatically: RNAi_primary
    Expr_pattern: Expr10004
      Expr1027885
      Expr1031586
      Expr1148104
      Expr2013767
      Expr2032002
    Drives_construct: WBCnstr00036128
    Construct_product: WBCnstr00036128
    Antibody: WBAntibody00002196
      WBAntibody00003031
    Microarray_results (25)
    Expression_cluster: WBPaper00031040:TGF-beta_adult_downregulated
      WBPaper00037950:A-class-motor-neurons_L1-larva_expressed
      WBPaper00037950:A-class-motor-neurons_L2-larva_expressed
      WBPaper00037950:A-class-motor-neurons_larva_enriched
      WBPaper00037950:all-neurons_L2-larva_expressed
      WBPaper00037950:AVA-neuron_L1-larva_expressed
      WBPaper00037950:AVE-neuron_L1-larva_expressed
      WBPaper00037950:BAG-neuron_blastula-embryo_expressed
      WBPaper00037950:bodywall-muscle_L1-larva_expressed
      WBPaper00037950:bodywall-muscle_L2-larva_expressed
      WBPaper00037950:CEP-sheath-cells_Day1-adult_expressed
      WBPaper00037950:coelomocytes_L1-larva_expressed
      WBPaper00037950:dopaminergic-neurons_L1-larva_expressed
      WBPaper00037950:GABAergic-motor-neurons_L1-larva_expressed
      WBPaper00037950:GABAergic-motor-neurons_L2-larva_expressed
      WBPaper00037950:germline-precursors_blastula-embryo_expressed
      WBPaper00037950:hypodermis_L1-larva_expressed
      WBPaper00037950:intestine_L1-larva_expressed
      WBPaper00037950:pharyngeal-muscle_L1-larva_expressed
      WBPaper00041071:spe-44_upregulated
      WBPaper00042194:nhr-114(RNAi)_upregulated
      WBPaper00044656:tatn-1(qd182)_downregulated
      WBPaper00044736:flat_dev_expression
      WBPaper00044760:germline_specific
      WBPaper00045521:Gender_Neutral
      WBPaper00048611:MnCl2_downregulated
      WBPaper00048988:neuron_expressed
      WBPaper00049159:Microwave_upregulated_adult
      WBPaper00049626:UNC-75_target
      WBPaper00049920:Glucose-Diet_downregulated_hyl-2(tm2031)
      WBPaper00049920:Glucose-Diet_downregulated_N2
      WBPaper00049942:hsf-1(RNAi)_upregulated
      WBPaper00049954:BPS_downregulated
      WBPaper00050488:adult_vs_dauer_regulated_N2_20C
      WBPaper00050488:mir-34(gk437)_vs_mir-34(OverExpression)_regulated_adult_25C
      WBPaper00050488:mir-34(OverExpression)_vs_N2_regulated_adult_20C
      WBPaper00050488:N2_vs_mir-34(OverExpression)_regulated_adult_25C
      WBPaper00050522:mafr-1(tm6082)_downregulated
      WBPaper00050859:downregulated_P-granule(-)GFP(+)_vs_control_day2-adult
      WBPaper00050859:downregulated_P-granule(-)GFP(-)_vs_control_day2-adult
      WBPaper00050859:downregulated_pgl-1(ct131)_vs_control_day1-adult
      WBPaper00050990:GABAergic-neuron_enriched
      WBPaper00050990:GABAergic-neuron_expressed
      WBPaper00051039:germline_enriched
      WBPaper00052884:emb-4(hc60)_downregulated
      WBPaper00053184:sma-2(rax5)_downregulated
      WBPaper00053184:sma-4(rax3)_downregulated
      WBPaper00053289:DREAM-target
      WBPaper00053302:stavudine_72h_regulated
      WBPaper00053302:zidovudine_72h_regulated
      WBPaper00053308:SMG-2_associated_NMD(-)_unaltered_ClassII
      WBPaper00053321:nos-1(gv5)nos-2(RNAi)_downregulated_L1_SMARTseq
      WBPaper00053321:PGCs_enriched_NuGen
      WBPaper00053606:N2_vs_elt-2(ca15);elt-7(tm840)_upregulated
      WBPaper00053606:N2_vs_elt-2(ca15)_upregulated
      WBPaper00055060:flr-1(RNAi)_upregulated
      WBPaper00055334:DLC-1_interacting
      WBPaper00055354:Allantoin_downregulated
      WBPaper00055354:eat-2(ad1116)_upregulated
      WBPaper00055354:Psora-Allantoin_upregulated
      WBPaper00055354:Rapamycin-Allantoin_upregulated
      WBPaper00055354:Rapamycin-Metformin_upregulated
      WBPaper00055648:germline_expressed
      WBPaper00055862:antimycin_damt-1(gk961032)_regulated
      WBPaper00056034:pals-22(jy3)_downregulated
      WBPaper00056090:E.faecalis_downregulated_hpx-2(dg047)
      WBPaper00056443:sek-1(km4)_downregulated
      WBPaper00056471:aak-1(tm1944);aak-2(ok524)_downregulated
      WBPaper00056826:hmc_biased
      WBPaper00057041:spc-1(cas971)_upregulated
      WBPaper00058691:sin-3(tm1276)_upregulated
      WBPaper00059664:srbc-48(ac23)_downregulated
      WBPaper00060278:atp-2(RNAi)_upregulated
      WBPaper00060358:B.thuringiensis_pathogen_regulated_elt-2(RNAi)
      WBPaper00060445:ikb-1(nr2027)_upregulated_L4
      WBPaper00060445:nfki-1(cer1)_upregulated_L4
      WBPaper00060661:sensory-neuron_depleted
      WBPaper00060683:hlh-11(ko1)_downregulated
      WBPaper00060909:atfs-1(cmh15)_upregulated
      WBPaper00061274:hypergravity_15xg_upregulated
      WBPaper00061274:microgravity_upregulated
      WBPaper00061340:DA_DB
      WBPaper00061340:Germline
      WBPaper00061340:SMB
      WBPaper00061340:Y
      WBPaper00061341:28C_24h_downregulated
      WBPaper00061439:unc-30(ok613)_downregulated
      WBPaper00061439:unc-30(ok613)_downregulated_P.aeruginosa-infection
      WBPaper00061527:pgl-1-wago-2
      WBPaper00061527:T22D1.5-inx-14
      WBPaper00061651:PHC_enriched
      WBPaper00061651:SAB_enriched
      WBPaper00062193:hsf-1(RNAi)_downregulated
      WBPaper00062193:skn-1(RNAi)_downregulated
      WBPaper00062325:muscle_depleted_coding-RNA
      WBPaper00062520:qui-1(db104)_downregulated
      WBPaper00064088:Day-1-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141)
      WBPaper00064088:Day-1-adult_vs_L4_upregulated_fem-3(q20)
      WBPaper00064088:Day-3-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141)
      WBPaper00064088:Day-3-adult_vs_L4_upregulated_fem-3(q20)
      WBPaper00064716:paraquat_upregulated
      WBPaper00064871:hypoxia_upregulated_F1
      WBPaper00065225:nhr-42(tm1375)_upregulated_S.aureus-infected
      WBPaper00065841:3_0
      WBPaper00065841:14_0
      WBPaper00065841:14_1
      WBPaper00065841:140_0
      WBPaper00065975:P-body_vs_oocyte_enriched
      WBPaper00065975:P-body_vs_WholeAnimal_enriched
      WBPaper00065993:glp-1(e2141)_downregulated
      WBPaper00065995:M.humicola-extract_downregulated_old-1(ok1273)
      WBPaper00066110:tetraploid_vs_diploid_downregulated
      WBPaper00066146:germline-inx-14(RNAi)_downregulated_PA14
      cgc4489_group_2
      WBPaper00025141:N2_Expressed_Genes
      WBPaper00025141:unc-4::GFP_Enriched_Genes
      WBPaper00025141:unc-4::GFP_Expressed_Genes
      WBPaper00026929:sir-2.1_overexpression_regulated
      WBPaper00029437:dcr-1_downregulated
      WBPaper00030839:Embryo_A_Class
      WBPaper00032165:differentially_expressed_with_age_medoid_3
      WBPaper00035873:dpy-9_regulated
      WBPaper00035905:FBF-1_Associated
      WBPaper00036130:mir-243_down_regulated
      WBPaper00036286:Pattern_B
      WBPaper00037611:GLD-2-associated
      WBPaper00040603:tdp-1(lf)_up_vs_N2_FC_1.2
      WBPaper00040963:TA200_down
      WBPaper00040963:TA300_down
      WBPaper00041002:HF_3d_2.0mM_Down
      WBPaper00041002:HF_11d_2.0mM_Up
      WBPaper00041606:CE_B.thuringiensis-DB27_regulated
      WBPaper00041606:CE_X.nematophila_regulated
      WBPaper00041906:I-3690_vs_OP50_3d
      WBPaper00042178:hlh-29(tm284)_downregulated
      WBPaper00045263:0.1mM-paraquat_upregulated
      WBPaper00045263:nuo-6(qm200)_downregulated
      WBPaper00048624:hlh-25(ok1710)_downregulated
      WBPaper00048989:N2_allantoin_upregulated
      WBPaper00056330:mrps-5(RNAi)_downregulated
      [cgc5767]:expression_class_M
      [cgc5767]:expression_class_MD
      [cgc5767]:expression_class_MD_pd(41_min)
      [cgc5767]:expression_class_SM
      [cgc5767]:expression_class_SMD
      [cgc6390]:Cluster_F
      [cgc6390]:oogenesis-enriched
    Interaction (73)
  Map_info: Map: IV Position: 8.22608 Error: 0.01548
    Well_ordered
    Positive: Positive_clone: F09E8 Inferred_automatically: From sequence, transcript, pseudogene data
    Mapping_data: Multi_point: 4008
        4009
  Reference: WBPaper00003240
    WBPaper00004198
    WBPaper00004349
    WBPaper00004377
    WBPaper00005134
    WBPaper00005486
    WBPaper00006010
    WBPaper00006086
    WBPaper00017535
    WBPaper00018081
    WBPaper00018747
    WBPaper00022284
    WBPaper00024115
    WBPaper00026369
    WBPaper00027086
    WBPaper00027223
    WBPaper00027700
    WBPaper00027942
    WBPaper00027974
    WBPaper00027996
    WBPaper00031432
    WBPaper00031940
    WBPaper00032296
    WBPaper00034425
    WBPaper00035505
    WBPaper00036364
    WBPaper00038491
    WBPaper00039364
    WBPaper00042568
    WBPaper00048543
    WBPaper00052023
    WBPaper00055090
    WBPaper00055518
    WBPaper00055541
    WBPaper00058643
    WBPaper00061204
    WBPaper00063133
    WBPaper00063963
    WBPaper00064114
    WBPaper00064168
    WBPaper00064957
  Remark: sequence connection from [Villeneuve AM]
    Sequence connection from [Boulton S, Vidal M]
    Data extracted from Kelly et al. (2000)
    F09E8.2 removed. email from JAH 0109
    Positive_clone is based on mutant sequence [030403 ck1]
  Method: Gene