WormBase Tree Display for Gene: WBGene00000122

WBGene00000122 SMap: S_parent: Sequence: M18
  Identity: Version: 1
    Name: CGC_name: aly-3 Person_evidence: WBPerson297
            WBPerson4981
      Sequence_name: M18.7
      Molecular_name: M18.7a
        M18.7a.1
        CE06198
        M18.7b
      Other_name: CELE_M18.7 Accession_evidence: NDB BX284604
      Public_name: aly-3
    DB_info: Database: WormQTL gene WBGene00000122
        WormFlux gene WBGene00000122
        NDB locus_tag CELE_M18.7
        Panther gene CAEEL|WormBase=WBGene00000122|UniProtKB=Q21559
          family PTHR19965
        NCBI gene 178157
        RefSeq protein NR_003454.1
            NM_001083228.6
        TREEFAM TREEFAM_ID TF313312
        TrEMBL UniProtAcc Q21559
        UniProt_GCRP UniProtAcc Q21559
        RNAcentral URSid URS0000253FBA
    Species: Caenorhabditis elegans
    History: Version_change: 1 07 Apr 2004 11:29:20 WBPerson1971 Event: Imported: Initial conversion from geneace
    Status: Live
  Gene_info: Biotype: SO:0001217
    Gene_class: aly
    Allele (33)
    RNASeq_FPKM (74)
    GO_annotation: 00072102
      00072103
      00072104
      00072105
      00106836
    Contained_in_operon: CEOP4496
    Ortholog (47)
    Paralog: WBGene00000120 Caenorhabditis elegans From_analysis: TreeFam
            Inparanoid_8
            Panther
            WormBase-Compara
      WBGene00000121 Caenorhabditis elegans From_analysis: TreeFam
            Inparanoid_8
            Panther
            WormBase-Compara
      WBGene00015329 Caenorhabditis elegans From_analysis: Panther
            WormBase-Compara
    Structured_description: Concise_description: aly-3 encodes an RRM motif-containing protein orthologous to human THOC4 (OMIM:604171), and paralogous to ALY-1 and ALY-2; by orthology, ALY-3 is thought to promote recruitment of mRNA export factor to mRNAs; however, ALY-3 has no grossly obvious function in four-way RNAi assays of ALY-1/-3 and W04D2.6, and aly-3(RNAi) had no obvious effect on nuclear retention of tra-2 mRNA in the absence of TRA-1. Paper_evidence: WBPaper00030790
          Curator_confirmed: WBPerson567
          Date_last_updated: 09 Dec 2007 00:00:00
      Automated_description: Predicted to enable mRNA binding activity. Predicted to be involved in mRNA export from nucleus. Predicted to be located in nucleus. Is an ortholog of human ALYREF (Aly/REF export factor). 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: M18.7a
    Corresponding_transcript: M18.7b
      M18.7a.1
    Other_sequence (31)
    Associated_feature (12)
  Experimental_info: RNAi_result (14)
    Expr_pattern: Expr13880
      Expr1015108
      Expr1030068
      Expr1154717
      Expr2009318
      Expr2027554
    Drives_construct: WBCnstr00037716
    Construct_product (2)
    Microarray_results (24)
    Expression_cluster: WBPaper00032097:CGH-1-associated-mRNA
      WBPaper00032425:up_in_lin-35
      WBPaper00032528:L3_enriched
      WBPaper00038289:oocyte_protein
      WBPaper00044426:rotenone_24h_upregulated
      WBPaper00044501:gld-1_let-7_regulated
      WBPaper00044656:tatn-1(qd182)_downregulated
      WBPaper00044736:flat_dev_expression
      WBPaper00044760:germline_specific
      WBPaper00045380:cep-1(gk138)_upregulated_normal
      WBPaper00045380:cep-1(gk138)_upregulated_UV
      WBPaper00045521:Gender_Neutral
      WBPaper00045571:germline-ablation_downregulated
      WBPaper00046497:B.thuringiensis_0.1mix_downregulated_6h
      WBPaper00048988:neuron_expressed
      WBPaper00049217:TCER-1_downregulated
      WBPaper00049545:jmjd-3.1(+)_downregulated
      WBPaper00049545:sur-5p-jmjd-1.2(+)_downregulated
      WBPaper00049942:hsf-1(RNAi)_downregulated
      WBPaper00050488:adult_vs_dauer_regulated_N2_20C
      WBPaper00050686:glp-1(e2141)_downregulated
      WBPaper00050859:downregulated_P-granule(-)GFP(+)_vs_control_day2-adult
      WBPaper00050990:arcade_intestinal-valve_expressed
      WBPaper00050990:body-muscle_expressed
      WBPaper00050990:GABAergic-neuron_expressed
      WBPaper00050990:hypodermis_expressed
      WBPaper00050990:intestine_expressed
      WBPaper00050990:NMDA-neuron_expressed
      WBPaper00050990:pharynx_expressed
      WBPaper00050990:seam_expressed
      WBPaper00051039:germline_enriched
      WBPaper00051245:body-wall-muscle_nucleus_expressed
      WBPaper00051245:epidermis_nucleus_expressed
      WBPaper00051245:intestine_nucleus_expressed
      WBPaper00051245:nucleus_specific
      WBPaper00051555:atm-1(gk186)_regulated_protein
      WBPaper00051558:aging_regulated
      WBPaper00052884:emb-4(hc60)_downregulated
      WBPaper00052987:UV_upregulated_xpc-1;csb-1
      WBPaper00053184:sma-2(rax5)_downregulated
      WBPaper00053184:sma-4(rax3)_downregulated
      WBPaper00053302:stavudine_24h_regulated
      WBPaper00053302:zidovudine_72h_regulated
      WBPaper00053308:SMG-2_associated_NMD(-)_unaltered_ClassII
      WBPaper00053388:dauer_regulated_Cluster6
      WBPaper00053810:daf-2(e1370)_downregulated
      WBPaper00053810:nuo-6(qm200)_downregulated
      WBPaper00055354:Rifampicin-Allantoin_upregulated
      WBPaper00055482:pmt-2(RNAi)_downregulated
      WBPaper00055648:germline_expressed
      WBPaper00055862:antimycin_damt-1(gk961032)_regulated
      WBPaper00056034:pals-22(jy3)_downregulated
      WBPaper00056090:E.faecalis_downregulated_hpx-2(dg047)
      WBPaper00056090:E.faecalis_downregulated_N2
      WBPaper00056139:soil-microbiota_downregulated
      WBPaper00056471:aak-1(tm1944);aak-2(ok524)_downregulated
      WBPaper00056900:PID-3_interacting
      WBPaper00056997:NMAD-1_interacting
      WBPaper00058598:sin-3(tm1276)_upregulated
      WBPaper00058725:sftb-1(cer6)_downregulated
      WBPaper00059174:MEG-3_interacting
      WBPaper00059356:set-6(ok2195)_baz-2(tm0235)_regulated
      WBPaper00059471:EGL-43_interacting
      WBPaper00059664:srbc-48(ac23)_downregulated
      WBPaper00059824:rnp-6(dh1127)_regulated_OP50
      WBPaper00059824:rnp-6(dh1127)_regulated_S.aureus
      WBPaper00060683:hlh-11(ko1)_downregulated
      WBPaper00060811:L1_vs_adult_upregulated_neural
      WBPaper00061007:S.aquatilis_downregulated
      WBPaper00061203:sin-3(tm1276)_downregulated
      WBPaper00061341:28C_24h_downregulated
      WBPaper00061341:28C_48h_downregulated
      WBPaper00061479:HDA-1_interacting_protein
      WBPaper00061527:lst-3_9016-W03F9.10_13548
      WBPaper00061651:M3_enriched
      WBPaper00062143:PQN-59_interacting
      WBPaper00062159:hda-2(ok1479)_downregulated
      WBPaper00062498:PPM-1.D_interacting
      WBPaper00062554:MAGU-2_interacting
      WBPaper00064071:NHR-49_interacting
      WBPaper00064088:Day-1-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141)
      WBPaper00064088:Day-3-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141)
      WBPaper00064122:vulva_transcriptome
      WBPaper00064163:ZNFX-1_interacting_embryo
      WBPaper00064716:paraquat_upregulated
      WBPaper00065120:body-muscle-transcriptome
      WBPaper00065373:sek-1(km4)_upregulated_cisplatin
      WBPaper00065373:sek-1(km4)_upregulated_Ref
      WBPaper00065975:P-body_vs_WholeAnimal_enriched
      WBPaper00065993:glp-1(e2141)_downregulated
      WBPaper00066146:germline-inx-14(RNAi)_downregulated_PA14
      cgc4386_cluster_6_2
      cgc4489_group_24
      WBPaper00025032:cluster_48
      WBPaper00025141:N2_Expressed_Genes
      WBPaper00025141:unc-4::GFP_Expressed_Genes
      WBPaper00026929:sir-2.1_overexpression_regulated
      WBPaper00026980:intestine_enriched
      WBPaper00031003:0hr_muscle_depleted
      WBPaper00031003:total_muscle_depleted
      WBPaper00031060:2-deoxy-D-glucose_downregulated
      WBPaper00031832:slr-2_regulated
      WBPaper00034739:N2moreDR1350
      WBPaper00036123:Atrazine_regulated
      WBPaper00036286:Pattern_G
      WBPaper00037901:GLD-1_mRNA_targets
      WBPaper00040210:Chlorpyrifos_24C_regulated
      WBPaper00040603:tdp-1(lf)_down_vs_N2_FC_1.2
      WBPaper00040858:eQTL_regulated_aging
      WBPaper00040858:eQTL_regulated_reproductive
      WBPaper00041606:CE_B.thuringiensis-DB27_regulated
      WBPaper00041606:CE_S.marcescens_regulated
      WBPaper00041606:CE_X.nematophila_regulated
      WBPaper00041939:control_vs_EtBr-exposed_24h
      WBPaper00041939:control_vs_UVC-EtBr-exposed_24h
      WBPaper00041939:control_vs_UVC-EtBr-exposed_48h
      WBPaper00041939:UVC-EtBr-exposed_vs_UVC-exposed_24h
      WBPaper00041939:UVC-EtBr-exposed_vs_UVC-exposed_48h
      WBPaper00048989:N2_rapamycin_downregulated
      WBPaper00053236:Starvation_regulated_GR1307
      WBPaper00053236:Starvation_regulated_N2
      [cgc5767]:cluster_7
      [cgc5767]:expression_class_E
      [cgc5767]:expression_class_ET
      [cgc5767]:expression_class_ET_max(101_min)
      [cgc5767]:expression_class_E_pi(53_min)
      [cgc5767]:expression_class_M
      [cgc5767]:expression_class_ME
      [cgc5767]:expression_class_MET
      [cgc6390]:intrinsic
    Interaction (34)
  Map_info: Map: IV Position: 5.72967 Error: 0.002435
    Positive: Positive_clone: M18 Inferred_automatically: From CDS info
            From sequence, transcript, pseudogene data
    Mapping_data: Multi_point: 5514
        5519
        5280
    Pseudo_map_position
  Reference: WBPaper00013477
    WBPaper00029295
    WBPaper00038491
    WBPaper00055090
    WBPaper00063792
    WBPaper00064012
  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