WormBase Tree Display for Gene: WBGene00000539

WBGene00000539 Evidence: CGC_data_submission
  SMap: S_parent: Sequence: F07B10
  Identity: Version: 1
    Name: CGC_name: cln-3.1
      Sequence_name: F07B10.1
      Molecular_name: F07B10.1a
        F07B10.1a.1
        CE09198
        F07B10.1b
        CE46158
        F07B10.1b.1
      Other_name: CELE_F07B10.1 Accession_evidence: NDB BX284605
      Public_name: cln-3.1
    DB_info: Database (11)
    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: cln
    Allele: WBVar00239315 Inferred_automatically: From strain object: NL796
          From strain object: XT4
          From strain object: XT5
          From strain object: XT7
      WBVar02061002
      WBVar02061003
      WBVar00004020
      WBVar00004025
      WBVar01743453
      WBVar01743454
      WBVar01865645
      WBVar01865646
      WBVar01865647
      WBVar01865648
      WBVar02137107
      WBVar00092929
      WBVar00470337
      WBVar00470338
      WBVar00470339
      WBVar01834618
      WBVar01500208
      WBVar01500209
      WBVar01974797
      WBVar01499299
      WBVar01047671
      WBVar01047672
      WBVar01047673
      WBVar01047674
      WBVar01047675
      WBVar01047676
      WBVar01499316
      WBVar01047677
      WBVar01047678
      WBVar01047679
      WBVar01496926
      WBVar01047680
      WBVar01047681
      WBVar01047682
      WBVar01047683
      WBVar01047684
      WBVar01047685
    Strain: WBStrain00003257
      WBStrain00028940
      WBStrain00032172
      WBStrain00040679
      WBStrain00040680
      WBStrain00040682
    RNASeq_FPKM (74)
    GO_annotation (15)
    Ortholog (44)
    Paralog: WBGene00000540 Caenorhabditis elegans From_analysis: TreeFam
            Panther
            WormBase-Compara
      WBGene00007586
      WBGene00000541 Caenorhabditis elegans From_analysis: Inparanoid_8
            Panther
            WormBase-Compara
    Structured_description: Automated_description: Involved in determination of adult lifespan and regulation of egg-laying behavior. Located in cytoplasm. Expressed in cuticle; diagonal muscle; hypodermis; intestine; and pharynx. Used to study neuronal ceroid lipofuscinosis. Human ortholog(s) of this gene implicated in neuronal ceroid lipofuscinosis 3. Is an ortholog of human CLN3 (CLN3 lysosomal/endosomal transmembrane protein, battenin). 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:14503 Homo sapiens Paper_evidence: WBPaper00027030
          Accession_evidence: OMIM 204200
          Curator_confirmed: WBPerson324
          Date_last_updated: 08 May 2017 00:00:00
    Potential_model: DOID:0110731 Homo sapiens Inferred_automatically: Inferred by orthology to human genes with DO annotation (HGNC:2074)
  Models_disease_asserted: WBDOannot00000119
    WBDOannot00000314
  Molecular_info: Corresponding_CDS: F07B10.1a
      F07B10.1b
    Corresponding_transcript: F07B10.1a.1
      F07B10.1b.1
    Other_sequence (13)
    Associated_feature: WBsf234521
  Experimental_info: RNAi_result: WBRNAi00043854 Inferred_automatically: RNAi_primary
      WBRNAi00030592 Inferred_automatically: RNAi_primary
    Expr_pattern: Chronogram53
      Expr3817
      Expr3818
      Expr3819
      Expr5669
      Expr1023637
      Expr1147829
      Expr2010240
      Expr2028482
    Drives_construct: WBCnstr00003732
      WBCnstr00011674
      WBCnstr00037464
    Construct_product: WBCnstr00037464
    Microarray_results (19)
    Expression_cluster: WBPaper00029359_1280
      WBPaper00029359_1310
      WBPaper00029359_1362
      WBPaper00029359_1364
      WBPaper00029359_1444
      WBPaper00029359_1504
      WBPaper00029359_1578
      WBPaper00029359_1587
      WBPaper00029359_1604
      WBPaper00031040:TGF-beta_adult_upregulated
      WBPaper00037950:CEP-sheath-cells_Day1-adult_expressed
      WBPaper00037950:dopaminergic-neurons_L3-L4-larva_expressed
      WBPaper00037950:GABAergic-motor-neurons_L1-larva_expressed
      WBPaper00037950:glr-1(+)-neurons_L2-larva_expressed
      WBPaper00037950:hypodermis_L3-L4-larva_expressed
      WBPaper00037950:intestine_CoreEnriched
      WBPaper00037950:intestine_embryo_enriched
      WBPaper00037950:intestine_embryo_SelectivelyEnriched
      WBPaper00037950:intestine_L1-larva_expressed
      WBPaper00037950:intestine_L2-larva_expressed
      WBPaper00037950:intestine_larva_enriched
      WBPaper00037950:intestine_larva_SelectivelyEnriched
      WBPaper00037950:pharyngeal-muscle_L1-larva_expressed
      WBPaper00037950:PVD-OLL-neurons_L3-L4-larva_expressed
      WBPaper00038438:Harposporium_24hr_upregulated_RNAseq
      WBPaper00038438:P.lumniescens_24hr_upregulated_RNAseq
      WBPaper00038438:S.marcescens_24hr_upregulated_RNAseq
      WBPaper00038438:S.marcescens_24hr_upregulated_TilingArray
      WBPaper00044260:1-methylnicotinamide_downregulated
      WBPaper00044316:CH3HgCl_7.5uM_downregulated
      WBPaper00044426:rotenone_24h_upregulated
      WBPaper00044578:reduced-humidity_downregulated_microarray
      WBPaper00044736:flat_dev_expression
      WBPaper00045521:Spermatogenic
      WBPaper00045774:clk-1_downregulated
      WBPaper00046497:B.thuringiensis_0.1mix_downregulated_6h
      WBPaper00046497:B.thuringiensis_0.1mix_downregulated_12h
      WBPaper00046497:B.thuringiensis_0.5mix_downregulated_6h
      WBPaper00046497:B.thuringiensis_0.5mix_downregulated_12h
      WBPaper00046509:htz-1(ok3099)_downregulated
      WBPaper00046509:lin-35(n745)_downregulated
      WBPaper00048923:Aging_regulated
      WBPaper00048971:daf-16(mgDf50)_upregulated_L1
      WBPaper00049368:daf-2(e1370)_downregulated
      WBPaper00049498:npr-1(ur89)_regulated_3
      WBPaper00049545:jmjd-3.1(+)_upregulated
      WBPaper00049545:rgef-1p-jmjd-1.2(+)_upregulated
      WBPaper00049736:daf-2(e1370)_downregulated_15deg-then-25deg(12hr)
      WBPaper00049920:Glucose-Diet_upregulated_N2
      WBPaper00049942:HeatShock_downregulated_hsf-1(RNAi)
      WBPaper00049942:hsf-1(RNAi)_downregulated
      WBPaper00050080:rbr-2(tm3141)_upregulated
      WBPaper00050488:20C_vs_25C_regulated_N2_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
      WBPaper00050726:starvation_regulated_LowSalt
      WBPaper00050859:upregulated_P-granule(-)GFP(+)_vs_control_day2-adult
      WBPaper00050990:intestine_enriched
      WBPaper00050990:intestine_expressed
      WBPaper00051039:intestine_enriched
      WBPaper00051257:Levamisole_downregulated
      WBPaper00051404:alg-1(gk214)_downregulated
      WBPaper00051558:aging_regulated
      WBPaper00052884:emb-4(hc60)_downregulated
      WBPaper00053184:sma-2(rax5)_upregulated
      WBPaper00053184:sma-4(rax3)_upregulated
      WBPaper00053302:zidovudine_72h_regulated
      WBPaper00053388:dauer_regulated_Cluster1
      WBPaper00053810:daf-2(e1370)_downregulated
      WBPaper00053810:isp-1(qm150)_downregulated
      WBPaper00054758:alg-1(gk204)_downregulated
      WBPaper00054872:egl-9(sa307)_downregulated
      WBPaper00055354:Psora-Allantoin_downregulated
      WBPaper00055354:Rapamycin-Metformin_downregulated
      WBPaper00055354:Rapamycin-Rifampicin-Allantoin_downregulated
      WBPaper00055354:Rapamycin-Rifampicin_downregulated
      WBPaper00055354:Rifampicin-Allantoin_downregulated
      WBPaper00055354:Rifampicin_downregulated
      WBPaper00055971:nhl-2(ok818)_20C_downregulated
      WBPaper00055971:nhl-2(ok818)_25C_downregulated
      WBPaper00056090:E.faecalis_downregulated_hpx-2(dg047)
      WBPaper00056090:E.faecalis_downregulated_N2
      WBPaper00056161:male_enriched_siRNA
      WBPaper00056218:daf-16(mu86)_downregulated_Day7
      WBPaper00056443:sek-1(km4)_upregulated
      WBPaper00056471:aak-1(tm1944);aak-2(ok524)_upregulated
      WBPaper00056471:S.aureus-4h_downregulated_N2
      WBPaper00056809:smn-1(ok355)_downregulated
      WBPaper00058598:mex-1(or286)_upregulated
      WBPaper00058598:mex-3(eu149)_upregulated
      WBPaper00058598:sin-3(tm1276)_downregulated
      WBPaper00058598:spn-4(tm291)_upregulated
      WBPaper00058711:paraquat_downregulated
      WBPaper00058711:wdr-5(ok1417)_downregulated
      WBPaper00058969:RIS_depleted
      WBPaper00059253:stearic-acid_downregulated
      WBPaper00059609:malt-1_ilc-17.1_nfki-1_downregulated
      WBPaper00059664:srbc-48(ac23)_upregulated
      WBPaper00059735:glucose_downregulated_lpin-1(RNAi)
      WBPaper00059824:rnp-6(dh1127)_regulated_OP50
      WBPaper00059895:wounding_downregulated
      WBPaper00059987:Wounding_downregulated
      WBPaper00060084:cco-1(RNAi)_downregulated_lin-40(yth27)
      WBPaper00060084:cco-1(RNAi)_downregulated_N2
      WBPaper00060273:isp-1(qm150)_downregulated
      WBPaper00060358:B.thuringiensis_non-pathogen_regulated_elt-2(RNAi)
      WBPaper00060358:B.thuringiensis_pathogen_regulated_elt-2(RNAi)
      WBPaper00060358:B.thuringiensis_pathogen_regulated_N2
      WBPaper00060399:pqm-1(ok485)_downregulated_CoCl2_6hr
      WBPaper00060434:pH4.33_vs_pH6.33_downrgulated
      WBPaper00060703:nas-38(ok3407)_downregulated
      WBPaper00060909:atfs-1(cmh15)_downregulated
      WBPaper00060909:atfs-1(et18)_upregulated
      WBPaper00060911:prx-5(RNAi)_upregulated_mRNA
      WBPaper00061081:E.faecalis_downregulated_N2
      WBPaper00061203:sin-3(tm1276)_upregulated
      WBPaper00061341:28C_24h_downregulated
      WBPaper00061341:28C_48h_downregulated
      WBPaper00061527:gst-26-pho-1_10767
      WBPaper00061902:camt-1(ok515)_regulated_URX-AQR-PQR
      WBPaper00062159:hda-2(ok1479)_upregulated
      WBPaper00062193:hsf-1(RNAi)_downregulated
      WBPaper00062197:mec-8_upregulated_TRN
      WBPaper00062325:muscle_depleted_coding-RNA
      WBPaper00062345:bortezomib_4h_downregulated_N2
      WBPaper00062590:Aging_downregulated_intestine
      WBPaper00062669:extracellular-vesicle_protein
      WBPaper00064088:Day-3-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141)
      WBPaper00064088:Day-3-adult_vs_L4_downregulated_glp-1(e2141)
      WBPaper00064156:lbp-3(overexpress)_upregulated
      WBPaper00064539:nhr-114(gk849)_downregulated
      WBPaper00064721:fasn-1(g14)_upregulated_starved
      WBPaper00065086:JU1400_N.ferruginous_regulated
      WBPaper00065096:Day10_vs_Day1_downregulated
      WBPaper00065096:npr-8(ok1439)_downregulated_Day10_20C
      WBPaper00065734:unc-25(e156)_upregulated
      WBPaper00065841:48_0
      WBPaper00065877:rege-1(imm070)_upregulated_OP50
      WBPaper00065993:glp-1(e2141)_upregulated
      WBPaper00066118:cyclobutrifluram_downregulated
      cgc4386_cluster_5_5
      cgc4489_group_4
      WBPaper00024393:strongly_regulated_dauer_genes
      WBPaper00025141:N2_Expressed_Genes
      WBPaper00029437:dcr-1_downregulated
      WBPaper00031252:AIN-2_IP_enriched
      WBPaper00032948:FedUp
      WBPaper00036286:Pattern_C
      WBPaper00037695:WC_5-day
      WBPaper00038231:Cry5B_1.5-fold_downregulated
      WBPaper00039851:HK_C_albicans_vs_HK_OP50
      WBPaper00039851:Live_C_albicans_vs_HK_OP50
      WBPaper00040184:hcf-1down_sir-2.1down_daf-2down
      WBPaper00040426:CYD-1_CDK-4_downregulated
      WBPaper00040603:tdp-1(lf)_up_vs_N2_FC_1.2
      WBPaper00040603:tdp-1(lf)_up_vs_N2_FC_1.5
      WBPaper00040858:eQTL_age_regulated_developing
      WBPaper00040858:eQTL_regulated_developing
      WBPaper00040858:eQTL_regulated_juvenile
      WBPaper00041002:HF_3d_0.2mM_Up
      WBPaper00041002:HF_3d_2.0mM_Up
      WBPaper00041002:HF_11d_0.2mM_Up
      WBPaper00041002:HQ_3d_0.2mM_Up
      WBPaper00041002:HQ_3d_2.0mM_Up
      WBPaper00041606:CE_X.nematophila_regulated
      WBPaper00041939:control_vs_EtBr-exposed_48h
      WBPaper00041939:control_vs_UVC-EtBr-exposed_48h
      WBPaper00041939:control_vs_UVC-EtBr-exposed_51h
      WBPaper00041939:UVC-EtBr-exposed_vs_UVC-exposed_48h
      WBPaper00041939:UVC-EtBr-exposed_vs_UVC-exposed_51h
      WBPaper00045263:0.1mM-paraquat_downregulated
      WBPaper00045263:isp-1(qm150)_downregulated
      WBPaper00045263:nuo-6(qm200)_downregulated
      WBPaper00045263:ProLongevity-mtROS_downregulated
      WBPaper00048989:eat-2(ad465)_rapamycin_upregulated
      WBPaper00053236:daf-16(mgDF50)_regulated_Starved
      WBPaper00053236:Starvation_regulated_N2
      WBPaper00053688:E.faecalis_downregulated
      WBPaper00053688:E.faecium_downregulated
    Interaction: WBInteraction000122588
      WBInteraction000133974
      WBInteraction000133975
      WBInteraction000285465
      WBInteraction000319652
      WBInteraction000391919
      WBInteraction000415645
  Map_info: Map: V Position: 3.03495 Error: 0.0019
    Positive: Positive_clone: F01B10
        F07B10 Inferred_automatically: From sequence, transcript, pseudogene data
    Mapping_data: Multi_point: 4225
        4365
        4855
        4822
    Pseudo_map_position
  Reference (11)
  Remark: [Sara E Mole] Three C. elegans genes are equally similar to the human gene CLN3 which causes juvenile neuronal ceroid lipofuscinosis (NCL) or Batten disease. There is at least one similar gene in over 20 eukaryotic species, including S. cerevisiae, S.pombe, D. melanogaster. No other completely sequenced genome has more than one CLN3 homologue. All three cln-3 genes in C. elegans are trancribed and accession numbers have been applied for. In human there are up to 8 NCL genes named CLN-8. CLN1 also has one homologue in C. elegans. CLN1 encodes the enzyme palmitoyl protein thioesterase 1 (PPT1).
    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