WormBase Tree Display for Gene: WBGene00004016

WBGene00004016 SMap: S_parent: Sequence: CHROMOSOME_III
  Identity: Version: 1
    Name: CGC_name: phf-5 Person_evidence: WBPerson564
      Sequence_name: Y54F10BM.14
      Molecular_name: Y54F10BM.14
        Y54F10BM.14.1
        CE33882
      Other_name: CELE_Y54F10BM.14 Accession_evidence: NDB BX284603
      Public_name: phf-5
    DB_info: Database: AceView gene 3D429
        WormQTL gene WBGene00004016
        WormFlux gene WBGene00004016
        NDB locus_tag CELE_Y54F10BM.14
        Panther gene CAEEL|WormBase=WBGene00004016|UniProtKB=G5EBY6
          family PTHR13120
        NCBI gene 3564851
        RefSeq protein NM_001027738.2
        TREEFAM TREEFAM_ID TF105627
        TrEMBL UniProtAcc G5EBY6
        UniProt_GCRP UniProtAcc G5EBY6
    Species: Caenorhabditis elegans
    History: Version_change: 1 07 Apr 2004 11:29:33 WBPerson1971 Event: Imported: Initial conversion from geneace
    Status: Live
  Gene_info: Biotype: SO:0001217
    Gene_class: phf
    Allele (119)
    Strain: WBStrain00006460
      WBStrain00055484
    RNASeq_FPKM (74)
    GO_annotation: 00010542
      00010543
      00010544
      00010545
      00010546
      00112195
    Contained_in_operon: CEOP3075
    Ortholog (34)
    Structured_description: Automated_description: Predicted to be involved in mRNA splicing, via spliceosome. Located in cytoplasm and nucleus. Expressed in body wall musculature; intestine; pharyngeal muscle cell; pharynx; and rectal muscle. Is an ortholog of human PHF5A (PHD finger protein 5A). 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: Y54F10BM.14
    Corresponding_transcript: Y54F10BM.14.1
    Other_sequence (66)
    Associated_feature: WBsf658509
      WBsf991497
      WBsf991498
      WBsf1014393
      WBsf224500
    Transcription_factor: WBTranscriptionFactor000668
  Experimental_info: RNAi_result: WBRNAi00022700 Inferred_automatically: RNAi_primary
      WBRNAi00022702 Inferred_automatically: RNAi_primary
      WBRNAi00117630 Inferred_automatically: RNAi_primary
      WBRNAi00022701 Inferred_automatically: RNAi_primary
      WBRNAi00117629 Inferred_automatically: RNAi_primary
      WBRNAi00106641 Inferred_automatically: RNAi_primary
    Expr_pattern: Expr2000
      Expr1024301
      Expr1031923
      Expr1160845
      Expr2014897
      Expr2033133
    Drives_construct: WBCnstr00000421
      WBCnstr00000431
    Antibody: WBAntibody00000558
    Microarray_results (15)
    Expression_cluster: WBPaper00037950:CEP-sheath-cells_Day1-adult_expressed
      WBPaper00037950:dopaminergic-neurons_L3-L4-larva_expressed
      WBPaper00037950:excretory-cell_L2-larva_expressed
      WBPaper00038118:aak-2(gt33)_downregulated
      WBPaper00038118:stress_downregulated_N2
      WBPaper00044426:rotenone_24h_downregulated
      WBPaper00044656:tatn-1(qd182)_downregulated
      WBPaper00044736:flat_dev_expression
      WBPaper00045316:prg-1_downregulated_L3
      WBPaper00045521:Gender_Neutral
      WBPaper00045774:clk-1_downregulated
      WBPaper00048923:Aging_regulated
      WBPaper00048988:neuron_expressed
      WBPaper00049545:cco-1(RNAi)_upregulated
      WBPaper00049545:jmjd-3.1(+)_upregulated
      WBPaper00049545:rgef-1p-jmjd-1.2(+)_upregulated
      WBPaper00049545:sur-5p-jmjd-1.2(+)_upregulated
      WBPaper00050053:muscle_enriched_Day4
      WBPaper00050412:cco-1(RNAi)_upregulated_N2
      WBPaper00050488:N2_vs_mir-34(gk437)_regulated_dauer_20C
      WBPaper00050990:intestine_enriched
      WBPaper00050990:intestine_expressed
      WBPaper00051039:germline_enriched
      WBPaper00053184:sma-4(rax3)_downregulated
      WBPaper00053302:zidovudine_72h_regulated
      WBPaper00053388:dauer_regulated_Cluster2
      WBPaper00053810:daf-2(e1370)_downregulated
      WBPaper00055354:Rifampicin-Allantoin_upregulated
      WBPaper00055648:germline_expressed
      WBPaper00055971:nhl-2(ok818)_25C_upregulated
      WBPaper00056090:E.faecalis_downregulated_N2
      WBPaper00056139:gut-microbiota_upregulated
      WBPaper00056471:aak-1(tm1944);aak-2(ok524)_downregulated
      WBPaper00058725:sftb-1(cer6)_upregulated
      WBPaper00061340:ADL_parent
      WBPaper00061340:AMso_parent
      WBPaper00061340:AVH_parent
      WBPaper00061340:I2_grandparent
      WBPaper00061340:M4_parent
      WBPaper00061340:Neuroblast_AVG_RIR
      WBPaper00061340:Neuroblast_AWC_SAAVx
      WBPaper00061340:Parents_of_U_F_B_DVA
      WBPaper00061340:Parent_of_AMsh_URB
      WBPaper00061340:PVQ_parent
      WBPaper00061340:RID_parent
      WBPaper00061340:RIM_parent
      WBPaper00062159:hda-2(ok1479)_downregulated
      WBPaper00064071:NHR-49_interacting
      WBPaper00064122:vulva_transcriptome
      WBPaper00064992:Capsaicin_upregulated
      WBPaper00064992:Eugenol_upregulated
      WBPaper00065096:Day10_vs_Day1_upregulated
      WBPaper00065373:sek-1(km4)_upregulated_cisplatin
      WBPaper00065975:P-body_vs_oocyte_depleted
      WBPaper00065993:glp-1(e2141)_downregulated
      WBPaper00066146:germline-inx-14(RNAi)_downregulated_PA14
      WBPaper00037113:Chlorpyrifos_Diazinon_16C_regulated
      WBPaper00040858:eQTL_age_regulated_aging
      WBPaper00041174:environmental
      WBPaper00041174:environmental_prime
    Interaction (97)
  Map_info: Map: III Position: -14.7412 Error: 0.009142
    Positive: Positive_clone: Y54F10BM Inferred_automatically: From CDS info
            From sequence, transcript, pseudogene data
    Pseudo_map_position
  Reference (5)
  Remark: phf-5 was previously connected to Y54F10BM.1 [Blasiar D][030411 ck1]
    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