WormBase Tree Display for Gene: WBGene00000545

WBGene00000545 SMap: S_parent: Sequence: Y39A3CL
  Identity: Version: 1
    Name: CGC_name: clp-4 Person_evidence: WBPerson349
      Sequence_name: Y39A3CL.5
      Molecular_name: Y39A3CL.5a
        Y39A3CL.5a.1
        CE33219
      Other_name: CELE_Y39A3CL.5 Accession_evidence: NDB BX284603
      Public_name: clp-4
    DB_info: Database: AceView gene 3C898
        WormQTL gene WBGene00000545
        WormFlux gene WBGene00000545
        NDB locus_tag CELE_Y39A3CL.5
        Panther gene CAEEL|WormBase=WBGene00000545|UniProtKB=Q8IAA9
          family PTHR10183
        NCBI gene 175326
        RefSeq protein NM_065059.10
        TrEMBL UniProtAcc Q8IAA9
        UniProt_GCRP UniProtAcc Q8IAA9
        OMIM gene 114220
            114240
    Species: Caenorhabditis elegans
    History: Version_change: 1 07 Apr 2004 11:29:21 WBPerson1971 Event: Imported: Initial conversion from geneace
    Status: Live
  Gene_info: Biotype: SO:0001217
    Gene_class: clp
    Allele (292)
    Strain: WBStrain00032805
    RNASeq_FPKM (74)
    GO_annotation (12)
    Ortholog (47)
    Paralog (13)
    Structured_description: Concise_description: clp-4 encodes a large calpain subunit that is homologous to Drosophila CalpainB and the mammalian muscle-specific Calpain 3 proteins (OMIM:114240, mutations are associated with limb-girdle muscular dystrophy); by homology, CLP-4 is predicted to function as a nonlysosomal, calcium-dependent, cysteine protease that is involved in intracellular proteolysis and peptidolysis; however, as loss of clp-4 activity via RNA-mediated interference (RNAi) does not result in any obvious abnormalities, the precise role of CLP-4 in C. elegans development and/or behavior is not yet known. Paper_evidence: WBPaper00004403
            WBPaper00005654
          Curator_confirmed: WBPerson1843
          Date_last_updated: 17 Jun 2004 00:00:00
      Automated_description: Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be located in cytoplasm. Expressed in GABAergic neurons; body wall musculature; dorsal nerve cord; and ventral nerve cord. Human ortholog(s) of this gene implicated in Alzheimer's disease; autosomal dominant limb-girdle muscular dystrophy; autosomal recessive limb-girdle muscular dystrophy type 2A; hereditary spastic paraplegia 76; and stomach cancer. Is an ortholog of several human genes including CAPN1 (calpain 1); CAPN2 (calpain 2); and CAPN3 (calpain 3). 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:10652 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:1476,HGNC:1479)
      DOID:0110275 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:1480)
      DOID:0110273 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:1480)
      DOID:9884 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:1480)
      DOID:10534 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:1486)
      DOID:0110821 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:1476)
  Molecular_info: Corresponding_CDS: Y39A3CL.5a
    Corresponding_CDS_history: Y39A3CL.5b:wp282
    Corresponding_transcript: Y39A3CL.5a.1
    Other_sequence (12)
    Associated_feature (11)
  Experimental_info: RNAi_result (15)
    Expr_pattern: Expr10018
      Expr1014965
      Expr1030326
      Expr1159658
      Expr2010246
      Expr2028488
    Drives_construct: WBCnstr00014643
    Construct_product: WBCnstr00014652
      WBCnstr00014658
    Microarray_results (22)
    Expression_cluster: WBPaper00036375:enriched_in_PVD_OLL
      WBPaper00037950:A-class-motor-neurons_L1-larva_expressed
      WBPaper00037950:A-class-motor-neurons_L2-larva_expressed
      WBPaper00037950:all-neurons_L2-larva_expressed
      WBPaper00037950:CEP-sheath-cells_Day1-adult_expressed
      WBPaper00037950:coelomocytes_L2-larva_expressed
      WBPaper00037950:dopaminergic-neurons_L1-larva_expressed
      WBPaper00037950:dopaminergic-neurons_L3-L4-larva_expressed
      WBPaper00037950:excretory-cell_L2-larva_expressed
      WBPaper00037950:excretory-cell_larva_enriched
      WBPaper00037950:GABAergic-motor-neurons_L1-larva_expressed
      WBPaper00037950:GABAergic-motor-neurons_L2-larva_expressed
      WBPaper00037950:germline-precursors_blastula-embryo_expressed
      WBPaper00037950:germline-precursors_embryo_enriched
      WBPaper00037950:glr-1(+)-neurons_L2-larva_expressed
      WBPaper00037950:hypodermis_L3-L4-larva_expressed
      WBPaper00037950:PVD-OLL-neurons_L3-L4-larva_expressed
      WBPaper00038438:S.marcescens_24hr_downregulated_TilingArray
      WBPaper00042215:wdr-23(tm1817)_upregulated
      WBPaper00044316:CH3HgCl_7.5uM_upregulated
      WBPaper00044736:flat_dev_expression
      WBPaper00045420:fertilization_downregulated_transcript
      WBPaper00045521:Spermatogenic
      WBPaper00045571:germline-ablation_upregulated
      WBPaper00046497:B.thuringiensis_0.1mix_upregulated_6h
      WBPaper00046497:B.thuringiensis_0.1mix_upregulated_12h
      WBPaper00046497:B.thuringiensis_0.5mix_upregulated_6h
      WBPaper00046497:B.thuringiensis_0.5mix_upregulated_12h
      WBPaper00046509:htz-1(ok3099)_upregulated
      WBPaper00047131:daf-2(e1370)_upregulated_N2-background
      WBPaper00047132:glp-1(ts)-25C_upregulated
      WBPaper00048923:Aging_regulated
      WBPaper00048988:neuron_enriched
      WBPaper00048988:neuron_expressed
      WBPaper00049545:jmjd-3.1(+)_upregulated
      WBPaper00049594:osm-9(ok1677)_upregulated
      WBPaper00049626:UNC-75_target
      WBPaper00049942:hsf-1(RNAi)_upregulated
      WBPaper00050344:AFD-neuron_enriched
      WBPaper00050344:ASER-neuron_enriched
      WBPaper00050344:PLM-neuron_enriched
      WBPaper00050488:20C_vs_25C_regulated_mir-34(gk437)_adult
      WBPaper00050488:20C_vs_25C_regulated_mir-34(OverExpression)_adult
      WBPaper00050488:adult_vs_dauer_regulated_N2_20C
      WBPaper00050488:mir-34(gk437)_vs_mir-34(OverExpression)_regulated_dauer_20C
      WBPaper00050488:N2_vs_mir-34(gk437)_regulated_dauer_20C
      WBPaper00050859:upregulated_glh-1(gk100)_vs_control_day1-adult
      WBPaper00050859:upregulated_P-granule(-)GFP(+)_vs_control_day2-adult
      WBPaper00050859:upregulated_P-granule(-)GFP(-)_vs_control_day1-adult
      WBPaper00050859:upregulated_P-granule(-)GFP(-)_vs_control_day2-adult
      WBPaper00050859:upregulated_pgl-1(ct131)_vs_control_day1-adult
      WBPaper00050903:mir-35-41(nDf50)_25C_upregulated
      WBPaper00050990:arcade_intestinal-valve_expressed
      WBPaper00050990:GABAergic-neuron_expressed
      WBPaper00050990:hypodermis_expressed
      WBPaper00050990:intestine_expressed
      WBPaper00050990:NMDA-neuron_expressed
      WBPaper00051245:body-wall-muscle_cytoplasm_expressed
      WBPaper00051245:epidermis_cytoplasm_expressed
      WBPaper00051245:intestine_cytoplasm_expressed
      WBPaper00051245:pharyngeal-muscle_cytoplasm_expressed
      WBPaper00051265:F4_hrde-1(tm1200)_upregulated
      WBPaper00051555:atm-1(gk186)_regulated_protein
      WBPaper00052884:emb-4(hc60)_upregulated
      WBPaper00053184:sma-2(rax5)_upregulated
      WBPaper00053184:sma-4(rax3)_upregulated
      WBPaper00053295:lin-22(icb38)_upregulated
      WBPaper00053308:SMG-2_associated_NMD(-)_unaltered_ClassII
      WBPaper00053388:dauer_regulated_Cluster4
      WBPaper00053599:mitosis_vs_meiosis_downregulated
      WBPaper00053599:oocyte_vs_mitosis_downregulated
      WBPaper00053810:daf-2(e1370)_upregulated
      WBPaper00053810:nuo-6(qm200)_upregulated
      WBPaper00054758:alg-1(gk204)_upregulated
      WBPaper00055049:S.gordonii_upregulated
      WBPaper00055354:eat-2(ad1116)_downregulated
      WBPaper00055354:Psora-Allantoin_downregulated
      WBPaper00055354:Rapamycin-Allantoin_downregulated
      WBPaper00055354:Rapamycin-Metformin_downregulated
      WBPaper00055354:Rifampicin-Allantoin_downregulated
      WBPaper00055482:pmt-2(RNAi)_upregulated
      WBPaper00055971:nhl-2(ok818)_25C_upregulated
      WBPaper00056139:soil-microbiota_upregulated
      WBPaper00056161:hermaphrodite_enriched_siRNA
      WBPaper00056167:Cry5B_downregulated
      WBPaper00056218:daf-16(mu86)_upregulated_Day7
      WBPaper00056284:ints-4(RNAi)_upregulated
      WBPaper00056326:zip-3(gk3164)_upregulated_P.aeruginosa-infected
      WBPaper00056443:sek-1(km4)_upregulated
      WBPaper00056471:flcn-1(ok975)_upregulated
      WBPaper00056826:hmc_biased
      WBPaper00056997:nmad-1(ok3133)_upregulated_germline_25C
      WBPaper00057140:meg-3(tm4259)_meg-4(ax2026)_downregulated
      WBPaper00057158:mdt-15(tm2182)_dependent_15C_downregulated
      WBPaper00057161:meg-3(tm4259)_meg-4(ax2026)_downregulated_endo-siRNA_targets
      WBPaper00057288:Cold_downregulated_protein
      WBPaper00057288:Cold_upregulated_transcript
      WBPaper00057288:iff-1(RNAi)_upregulated_transcript
      WBPaper00058598:sin-3(tm1276)_downregulated
      WBPaper00058691:cfp-1(tm6369)_downregulated
      WBPaper00058691:sin-3(tm1276)_downregulated
      WBPaper00059027:neuron-synapses_depleted
      WBPaper00059356:BAZ-2_SET-6_interacting
      WBPaper00059471:EGL-43_interacting
      WBPaper00059537:ngn-1(ok2200)_upregulated
      WBPaper00059566:wdr-23(mac32)_upregulated
      WBPaper00059664:srbc-48(ac23)_upregulated
      WBPaper00059763:neuron_expressed
      WBPaper00059895:wounding_upregulated
      WBPaper00059987:Wounding_upregulated
      WBPaper00060100:SiNP_upregulated_mRNA
      WBPaper00060358:B.thuringiensis_pathogen_regulated_elt-2(RNAi)
      WBPaper00060358:B.thuringiensis_pathogen_regulated_N2
      WBPaper00060399:pqm-1(ok485)_upregulated_CoCl2_6hr
      WBPaper00060459:bcat-1(RNAi)_upregulated
      WBPaper00060661:sensory-neuron_enriched
      WBPaper00060811:L1_vs_adult_upregulated_neural
      WBPaper00061203:let-418(n3536)_upregulated
      WBPaper00061203:sin-3(tm1276)_upregulated
      WBPaper00061203:spr-1(ok2144)_upregulated
      WBPaper00061340:ALA
      WBPaper00061340:M_cell
      WBPaper00061340:PLM
      WBPaper00061340:T
      WBPaper00061341:28C_24h_upregulated
      WBPaper00061341:28C_48h_upregulated
      WBPaper00061527:acy-2-F35C5.11
      WBPaper00061651:AIZ_enriched
      WBPaper00061651:AVJ_enriched
      WBPaper00061651:PDE_enriched
      WBPaper00061651:PVR_enriched
      WBPaper00061651:PVW_enriched
      WBPaper00061651:VB01_enriched
      WBPaper00061902:camt-1(ok515)_regulated_RMG
      WBPaper00061902:camt-1(ok515)_regulated_URX-AQR-PQR
      WBPaper00062103:neuron_enriched
      WBPaper00062159:hda-2(ok1479)_upregulated
      WBPaper00062193:skn-1(RNAi)_upregulated
      WBPaper00062325:muscle_enriched_coding-RNA
      WBPaper00062354:H.zoospora_6h_regulated
      WBPaper00062587:lsl-1(ljm1)_upregulated
      WBPaper00062587:lsl-1(tm4769)_upregulated
      WBPaper00062669:extracellular-vesicle_protein
      WBPaper00064088:Day-1-adult_vs_L4_upregulated_daf-16(mu86);glp-1(e2141)
      WBPaper00064088:Day-1-adult_vs_L4_upregulated_fem-3(q20)
      WBPaper00064088:Day-1-adult_vs_L4_upregulated_glp-1(e2141)
      WBPaper00064088:Day-3-adult_vs_L4_upregulated_daf-16(mu86);glp-1(e2141)
      WBPaper00064088:Day-3-adult_vs_L4_upregulated_fem-3(q20)
      WBPaper00064088:Day-3-adult_vs_L4_upregulated_glp-1(e2141)
      WBPaper00064229:B.thuringiensis-Cry5Ba_downregulated
      WBPaper00064315:mrg-1(qa6200)_upregulated_PGCs
      WBPaper00064716:paraquat_downregulated
      WBPaper00065086:JU1400_N.ferruginous_regulated
      WBPaper00065373:Cisplatin_upregulated_WT
      WBPaper00065749:Heat-Shock-With-Recovery_upregulated_N2
      WBPaper00065841:28_0
      WBPaper00065841:46_0
      WBPaper00065841:129_0
      WBPaper00065975:P-body_vs_WholeAnimal_depleted
      WBPaper00065993:glp-1(e2141)_upregulated
      WBPaper00066085:sin-3(syb2172)_upregulated
      WBPaper00066146:germline-inx-14(RNAi)_upregulated_PA14
      cgc4489_group_14
      WBPaper00025032:cluster_24
      WBPaper00025141:N2_Expressed_Genes
      WBPaper00025141:unc-4::GFP_Expressed_Genes
      WBPaper00029437:dcr-1_upregulated
      WBPaper00030839:Larval_A_Class
      WBPaper00030839:Larval_Pan_Neuronal
      WBPaper00031003:0hr_muscle_depleted
      WBPaper00031003:24hr_muscle_depleted
      WBPaper00031003:hlh_1_enriched
      WBPaper00031003:total_muscle_depleted
      WBPaper00031532:Larva_Pan_Neuronal_Enriched
      WBPaper00036130:mir-243_up_regulated
      WBPaper00037695:LD_3-day
      WBPaper00038231:Cry5B_1.5-fold_upregulated
      WBPaper00038231:Cry5B_2-fold_upregulated
      WBPaper00039866:ClassComp_daf-19_upregulated
      WBPaper00040184:hcf-1nc_sir-2.1nc_daf-2up
      WBPaper00040876:mir-35_upregulated
      WBPaper00041002:HF_11d_0.2mM_Up
      WBPaper00041174:environmental
      WBPaper00041174:genotypic
      WBPaper00041174:genotypic_and_environmental
      WBPaper00041606:CE_X.nematophila_regulated
      WBPaper00041939:control_vs_EtBr-exposed_48h
      WBPaper00041939:control_vs_UVC-EtBr-exposed_48h
      WBPaper00041939:EtBr-exposed_vs_UVC-exposed_48h
      WBPaper00041939:UVC-EtBr-exposed_vs_UVC-exposed_48h
      WBPaper00042274:tbx-2(bx59)_upregulated
      WBPaper00044013:nasp-1_downregulated
      WBPaper00045263:nuo-6(qm200)_upregulated
      WBPaper00048989:eat-2(ad465)_rapamycin_downregulated
      WBPaper00048989:eat-2(ad465)_upregulated_in-DMSO
      WBPaper00048989:N2_allantoin_downregulated
      WBPaper00048989:N2_rapamycin_upregulated
      WBPaper00053236:Starvation_regulated_GR1307
      WBPaper00053236:Starvation_regulated_N2
      WBPaper00053550:daf-19(m86)_upregulated_3-fold-embryo
      WBPaper00057098:SiO2-nanoparticles_upregulated
      [cgc5767]:cluster_30
      [cgc5767]:expression_class_E
      [cgc5767]:expression_class_E_pi(53_min)
      [cgc5767]:expression_class_SE
      [cgc5767]:expression_class_SE_pi(53_min)
    Interaction (22)
  Map_info: Map: III Position: -16.0584 Error: 0.022067
    Positive: Positive_clone: Y39A3CL Inferred_automatically: From CDS info
            From sequence, transcript, pseudogene data
    Pseudo_map_position
  Reference: WBPaper00005513
    WBPaper00025192
    WBPaper00027531
    WBPaper00038491
    WBPaper00055090
    WBPaper00065924
  Remark: Sequence connection from [Kuwabara PE]
    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