WormBase Tree Display for Gene: WBGene00003079

WBGene00003079 Evidence: Person_evidence: WBPerson1846
  SMap: S_parent: Sequence: F28F8
  Identity: Version: 1
    Name: CGC_name: lsm-5
      Sequence_name: F28F8.3
      Molecular_name: F28F8.3
        F28F8.3.1
        CE09757
      Other_name: CELE_F28F8.3 Accession_evidence: NDB BX284605
      Public_name: lsm-5
    DB_info: Database: AceView gene 5Q49
        WormQTL gene WBGene00003079
        WormFlux gene WBGene00003079
        NDB locus_tag CELE_F28F8.3
        Panther gene CAEEL|WormBase=WBGene00003079|UniProtKB=O18694
          family PTHR20971
        NCBI gene 180047
        RefSeq protein NM_001380830.1
        TREEFAM TREEFAM_ID TF313575
        TrEMBL UniProtAcc O18694
        UniProt_GCRP UniProtAcc O18694
    Species: Caenorhabditis elegans
    History: Version_change: 1 07 Apr 2004 11:29:30 WBPerson1971 Event: Imported: Initial conversion from geneace
    Status: Live
  Gene_info: Biotype: SO:0001217
    Gene_class: lsm
    Allele (12)
    Strain: WBStrain00037485
    RNASeq_FPKM (74)
    GO_annotation (15)
    Ortholog (35)
    Structured_description: Automated_description: Predicted to contribute to RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in cytoplasm and nucleus. Predicted to be part of Lsm1-7-Pat1 complex; U4/U6 x U5 tri-snRNP complex; and U6 snRNP. Is an ortholog of human LSM5 (LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated). 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
  Molecular_info: Corresponding_CDS: F28F8.3
    Corresponding_transcript: F28F8.3.1
    Other_sequence (60)
    Associated_feature: WBsf647601
  Experimental_info: RNAi_result: WBRNAi00014061 Inferred_automatically: RNAi_primary
      WBRNAi00117295 Inferred_automatically: RNAi_primary
      WBRNAi00045849 Inferred_automatically: RNAi_primary
      WBRNAi00083680 Inferred_automatically: RNAi_primary
      WBRNAi00083575 Inferred_automatically: RNAi_primary
      WBRNAi00061511 Inferred_automatically: RNAi_primary
      WBRNAi00083770 Inferred_automatically: RNAi_primary
      WBRNAi00031534 Inferred_automatically: RNAi_primary
      WBRNAi00117285 Inferred_automatically: RNAi_primary
      WBRNAi00083522 Inferred_automatically: RNAi_primary
      WBRNAi00083489 Inferred_automatically: RNAi_primary
      WBRNAi00117306 Inferred_automatically: RNAi_primary
      WBRNAi00085620 Inferred_automatically: RNAi_primary
    Expr_pattern: Expr1010827
      Expr1031454
      Expr1149754
      Expr2013292
      Expr2031523
    Microarray_results (23)
    Expression_cluster: WBPaper00033065:clk-1(qm30)_upregulated
      WBPaper00033065:cyc-1(RNAi)_upregulated
      WBPaper00037950:all-neurons_L1-larva_expressed
      WBPaper00037950:all-neurons_L2-larva_expressed
      WBPaper00037950:AVA-neuron_L1-larva_expressed
      WBPaper00037950:AVE-neuron_L1-larva_expressed
      WBPaper00037950:bodywall-muscle_L2-larva_expressed
      WBPaper00037950:bodywall-muscle_larva_enriched
      WBPaper00037950:CEP-sheath-cells_Day1-adult_expressed
      WBPaper00037950:coelomocytes_L1-larva_expressed
      WBPaper00037950:dopaminergic-neurons_L3-L4-larva_expressed
      WBPaper00037950:excretory-cell_L2-larva_expressed
      WBPaper00037950:germline-precursors_blastula-embryo_expressed
      WBPaper00037950:hypodermis_L3-L4-larva_expressed
      WBPaper00037950:intestine_L1-larva_expressed
      WBPaper00037950:intestine_L2-larva_expressed
      WBPaper00037950:intestine_larva_enriched
      WBPaper00037950:pharyngeal-muscle_L1-larva_expressed
      WBPaper00037950:PVD-OLL-neurons_L3-L4-larva_expressed
      WBPaper00037950:PVD-OLL-neurons_larva_enriched
      WBPaper00038118:aak-2(gt33)_downregulated
      WBPaper00038118:stress_downregulated_N2
      WBPaper00038289:oocyte_protein
      WBPaper00038438:S.marcescens_24hr_downregulated_RNAseq
      WBPaper00038438:S.marcescens_24hr_upregulated_TilingArray
      WBPaper00044426:rotenone_24h_upregulated
      WBPaper00044501:gld-1_let-7_regulated
      WBPaper00044656:tatn-1(qd182)_downregulated
      WBPaper00044736:flat_dev_expression
      WBPaper00045521:Gender_Neutral
      WBPaper00045571:germline-ablation_downregulated
      WBPaper00045774:clk-1_downregulated
      WBPaper00048923:Aging_regulated
      WBPaper00048926:miaserin_upregulated_adult-day5
      WBPaper00048971:daf-16(mgDf50)_downregulated_L1
      WBPaper00048988:neuron_expressed
      WBPaper00049545:cco-1(RNAi)_downregulated
      WBPaper00049545:jmjd-3.1(+)_downregulated
      WBPaper00049545:sur-5p-jmjd-1.2(+)_downregulated
      WBPaper00050344:AFD-neuron_enriched
      WBPaper00050344:ASER-neuron_enriched
      WBPaper00050488:adult_vs_dauer_regulated_N2_20C
      WBPaper00050990:arcade_intestinal-valve_expressed
      WBPaper00050990:GABAergic-neuron_expressed
      WBPaper00050990:hypodermis_expressed
      WBPaper00050990:intestine_expressed
      WBPaper00050990:NMDA-neuron_expressed
      WBPaper00050990:pharynx_expressed
      WBPaper00051039:germline_enriched
      WBPaper00053184:sma-2(rax5)_downregulated
      WBPaper00053184:sma-4(rax3)_downregulated
      WBPaper00053289:DREAM-target
      WBPaper00053302:zidovudine_24h_regulated
      WBPaper00053388:dauer_regulated_Cluster6
      WBPaper00053599:oocyte_vs_mitosis_upregulated
      WBPaper00053810:nuo-6(qm200)_downregulated
      WBPaper00055049:S.gordonii_downregulated
      WBPaper00055354:Rifampicin-Allantoin_upregulated
      WBPaper00055648:germline_expressed
      WBPaper00056284:ints-11(RNAi)_upregulated
      WBPaper00056471:aak-1(tm1944);aak-2(ok524)_downregulated
      WBPaper00056471:S.aureus-4h_downregulated_N2
      WBPaper00057041:spc-1(cas971)_upregulated
      WBPaper00058691:cfp-1(tm6369)_upregulated
      WBPaper00058691:sin-3(tm1276)_downregulated
      WBPaper00058725:sftb-1(cer6)_upregulated
      WBPaper00058725:sftb-1(cer39)_upregulated
      WBPaper00059328:mrps-5(RNAi)_downregulated_mRNA
      WBPaper00059356:set-6(ok2195)_baz-2(tm0235)_regulated
      WBPaper00059378:cec-4(ok3124);lmn-1(Y59C)_vs_lmn-1(Y59C)_downregulated
      WBPaper00059378:lmn-1(Y59C)_upregulated
      WBPaper00060014:set-2(tm1630)_upregulated
      WBPaper00060459:bcat-1(RNAi)_downregulated
      WBPaper00060811:L1_vs_adult_downregulated_neural
      WBPaper00061340:Neuroblast_AWC_SAAVx
      WBPaper00061340:Neuroblast_IL1_IL2
      WBPaper00061340:OLQ_grandparent
      WBPaper00061340:Parent_of_exc_gland_AVK
      WBPaper00061340:Parent_of_hyp3_ILsoDx
      WBPaper00061439:unc-30(ok613)_upregulated
      WBPaper00061527:R07E4.5-skp-1_1608
      WBPaper00061651:Germline_enriched
      WBPaper00062159:hda-2(ok1479)_downregulated
      WBPaper00062193:skn-1(RNAi)_upregulated
      WBPaper00062325:etr-1(lq61)_downregulated
      WBPaper00062325:muscle_enriched_coding-RNA
      WBPaper00064088:Day-3-adult_vs_L4_downregulated_glp-1(e2141)
      WBPaper00064315:mrg-1(qa6200)_downregulated_PGCs
      WBPaper00064716:paraquat_upregulated
      WBPaper00064727:daf-2(e1370)_downregulated
      WBPaper00065096:Day10_vs_Day1_upregulated
      WBPaper00065975:P-body_vs_oocyte_depleted
      WBPaper00065993:glp-1(e2141)_downregulated
      WBPaper00066146:germline-inx-14(RNAi)_downregulated_PA14
      cgc4386_cluster_6_2
      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
      WBPaper00026980:intestine_enriched
      WBPaper00028564:CeMM_vs_NGM_upregulated
      WBPaper00030839:Embryo_A_Class
      WBPaper00030985:Erwinia_carotovora_upregulated
      WBPaper00032165:differentially_expressed_with_age_medoid_7
      WBPaper00035905:FBF-1_Associated
      WBPaper00036286:Pattern_F
      WBPaper00040603:tdp-1(lf)_up_vs_N2_FC_1.2
      WBPaper00041606:CE_B.thuringiensis-DB27_regulated
      WBPaper00041606:CE_X.nematophila_regulated
      WBPaper00041939:control_vs_UVC-EtBr-exposed_48h
      WBPaper00041939:UVC-EtBr-exposed_vs_UVC-exposed_48h
      WBPaper00045263:nuo-6(qm200)_downregulated
      WBPaper00053236:Starvation_regulated_GR1307
      WBPaper00053236:Starvation_regulated_N2
      [cgc5767]:expression_class_E
      [cgc5767]:expression_class_E_pi(53_min)
      [cgc5767]:expression_class_E_pi(66_min)
      [cgc5767]:expression_class_M
      [cgc5767]:expression_class_ME
      [cgc6390]:oogenesis-enriched
    SAGE_tag: SAGE:ttcacgtagt Strand: Antisense
      SAGE:gttctggaggacgtcgt Strand: Sense
        Unambiguously_mapped
      SAGE:gttctggagg Strand: Sense
        Unambiguously_mapped
      SAGE:ttcacgtagtcatcgaa Strand: Antisense
    Interaction (235)
  Map_info: Map: V Position: 8.36658 Error: 0.003911
    Positive: Positive_clone: F28F8 Inferred_automatically: From CDS info
            From sequence, transcript, pseudogene data
    Pseudo_map_position
  Reference: WBPaper00028564
    WBPaper00038491
    WBPaper00046572
    WBPaper00055090
    WBPaper00059378
    WBPaper00059527
  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