LOCUS       NM_001040443            1356 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens PHD finger protein 11 (PHF11), transcript variant 1,
            mRNA.
ACCESSION   NM_001040443
VERSION     NM_001040443.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1356)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   2  (bases 1 to 1356)
  AUTHORS   de Saram,P., Iqbal,A., Murdoch,J.N. and Wilkinson,C.J.
  TITLE     BCAP is a centriolar satellite protein and inhibitor of
            ciliogenesis
  JOURNAL   J Cell Sci 130 (19), 3360-3373 (2017)
   PUBMED   28775150
  REMARK    GeneRIF: data suggest that BCAP exists as two isoforms with subtly
            different roles in inhibition of ciliogenesis. Both are required to
            prevent ciliogenesis and one additionally controls cilium length
            after ciliogenesis has completed.
REFERENCE   3  (bases 1 to 1356)
  AUTHORS   Muscat,P., Mercado,K., Payne,K., Chahal,H. and Jones,G.
  TITLE     PHF11 expression and cellular distribution is regulated by the
            Toll-Like Receptor 3 Ligand Polyinosinic:Polycytidylic Acid in
            HaCaT keratinocytes
  JOURNAL   BMC Immunol 16, 69 (2015)
   PUBMED   26573531
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1356)
  AUTHORS   Holt,R.J., Zhang,Y., Binia,A., Dixon,A.L., Vandiedonck,C.,
            Cookson,W.O., Knight,J.C. and Moffatt,M.F.
  TITLE     Allele-specific transcription of the asthma-associated PHD finger
            protein 11 gene (PHF11) modulated by octamer-binding transcription
            factor 1 (Oct-1)
  JOURNAL   J Allergy Clin Immunol 127 (4), 1054-62 (2011)
   PUBMED   21320718
  REMARK    GeneRIF: the single nucleotide polymorphism rs1046295 of PHF11
            modulates allele-specific binding by the octamer-binding
            transcription factor 1
REFERENCE   5  (bases 1 to 1356)
  AUTHORS   Sy,H.Y., Chan,I.H., Hon,E.K., Kong,A.P., Tang,N.L., Li,C.Y.,
            Wong,G.W., Waye,M.M., Lam,C.W., Chan,J.C. and Leung,T.F.
  TITLE     PHF11 is not a major candidate gene for asthma or eczema in Chinese
            children
  JOURNAL   Pediatr Pulmonol 45 (9), 890-897 (2010)
   PUBMED   20717939
  REMARK    GeneRIF: PHF11 (PHD finger protein 11) is not a major candidate
            gene for asthma or eczema in Chinese children
            GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   6  (bases 1 to 1356)
  AUTHORS   Clarke,E., Rahman,N., Page,N., Rolph,M.S., Stewart,G.J. and
            Jones,G.J.
  TITLE     Functional characterization of the atopy-associated gene PHF11
  JOURNAL   J Allergy Clin Immunol 121 (5), 1148-1154 (2008)
   PUBMED   18405956
  REMARK    GeneRIF: PHF11 is a regulator of T(H)1-type cytokine gene
            expression
REFERENCE   7  (bases 1 to 1356)
  AUTHORS   Hersh,C.P., Raby,B.A., Soto-Quiros,M.E., Murphy,A.J., Avila,L.,
            Lasky-Su,J., Sylvia,J.S., Klanderman,B.J., Lange,C., Weiss,S.T. and
            Celedon,J.C.
  TITLE     Comprehensive testing of positionally cloned asthma genes in two
            populations
  JOURNAL   Am J Respir Crit Care Med 176 (9), 849-857 (2007)
   PUBMED   17702965
  REMARK    GeneRIF: Results provide some further support for the role of
            genetic variation in PHF11 in asthma susceptibility.
            GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   8  (bases 1 to 1356)
  AUTHORS   Jang,N., Stewart,G. and Jones,G.
  TITLE     Polymorphisms within the PHF11 gene at chromosome 13q14 are
            associated with childhood atopic dermatitis
  JOURNAL   Genes Immun 6 (3), 262-264 (2005)
   PUBMED   15674390
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   9  (bases 1 to 1356)
  AUTHORS   Zhang,Y., Leaves,N.I., Anderson,G.G., Ponting,C.P., Broxholme,J.,
            Holt,R., Edser,P., Bhattacharyya,S., Dunham,A., Adcock,I.M.,
            Pulleyn,L., Barnes,P.J., Harper,J.I., Abecasis,G., Cardon,L.,
            White,M., Burton,J., Matthews,L., Mott,R., Ross,M., Cox,R.,
            Moffatt,M.F. and Cookson,W.O.
  TITLE     Positional cloning of a quantitative trait locus on chromosome
            13q14 that influences immunoglobulin E levels and asthma
  JOURNAL   Nat Genet 34 (2), 181-186 (2003)
   PUBMED   12754510
  REMARK    GeneRIF: Positional cloning of a quantitative trait locus on
            chromosome 13q14 that influences immunoglobulin E levels and
            asthma.
REFERENCE   10 (bases 1 to 1356)
  AUTHORS   Scanlan,M.J., Gordan,J.D., Williamson,B., Stockert,E., Bander,N.H.,
            Jongeneel,V., Gure,A.O., Jager,D., Jager,E., Knuth,A., Chen,Y.T.
            and Old,L.J.
  TITLE     Antigens recognized by autologous antibody in patients with
            renal-cell carcinoma
  JOURNAL   Int J Cancer 83 (4), 456-464 (1999)
   PUBMED   10508479
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA652444.1 and AK026228.1.
            
            On Nov 22, 2018 this sequence version replaced NM_001040443.2.
            
            Summary: This gene encodes a protein containing a PHD (plant
            homeodomain) type zinc finger. This gene has been identified in
            some studies as a candidate gene for asthma. Naturally-occurring
            readthrough transcription may occur from the upstream SETDB2 (SET
            domain bifurcated 2) gene to this locus. Alternative splicing
            results in multiple transcript variants. [provided by RefSeq, Mar
            2016].
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR3476690.897197.1,
                                           SRR3476690.1156379.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000378319.8/ ENSP00000367570.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-143               DA652444.1         289-431
            144-1356            AK026228.1         127-1339
FEATURES             Location/Qualifiers
     source          1..1356
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="13"
                     /map="13q14.2"
     gene            1..1356
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /note="PHD finger protein 11"
                     /db_xref="GeneID:51131"
                     /db_xref="HGNC:HGNC:17024"
                     /db_xref="MIM:607796"
     exon            1..143
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     CDS             50..1045
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /note="isoform a is encoded by transcript variant 1; IgE
                     responsiveness (atopic); renal carcinoma antigen
                     NY-REN-34; BRCA1 C-terminus-associated protein"
                     /codon_start=1
                     /product="PHD finger protein 11 isoform a"
                     /protein_id="NP_001035533.1"
                     /db_xref="CCDS:CCDS31975.1"
                     /db_xref="GeneID:51131"
                     /db_xref="HGNC:HGNC:17024"
                     /db_xref="MIM:607796"
                     /translation="MAQASPPRPERVLGASSPEARPAQEALLLPTGVFQVAEKMEKRT
                     CALCPKDVEYNVLYFAQSENIAAHENCLLYSSGLVECEDQDPLNPDRSFDVESVKKEI
                     QRGRKLKCKFCHKRGATVGCDLKNCNKNYHFFCAKKDDAVPQSDGVRGIYKLLCQQHA
                     QFPIIAQSAKFSGVKRKRGRKKPLSGNHVQPPETMKCNTFIRQVKEEHGRHTDATVKV
                     PFLKKCKEAGLLNYLLEEILDKVHSIPEKLMDETTSESDYEEIGSALFDCRLFEDTFV
                     NFQAAIEKKIHASQQRWQQLKEEIELLQDLKQTLCSFQENRDLMSSSTSISSLSY"
     exon            144..265
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            266..373
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            374..507
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            508..554
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            555..619
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            620..686
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            687..818
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            819..890
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     exon            891..1356
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1337..1342
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /note="hexamer: AATAAA"
     polyA_site      1356
                     /gene="PHF11"
                     /gene_synonym="APY; BCAP; IGEL; IGER; IGHER; NY-REN-34;
                     NYREN34"
                     /note="major polyA site"
ORIGIN      
        1 acttccggga tctcgctatc cggccgccac ccgcagctgc agcacagtca tggcccaggc
       61 gtcgccgccc cggcccgaga gggtgctcgg cgccagcagc ccggaggccc ggcccgcgca
      121 ggaggcgctc ctccttccca ccggtgtctt tcaggttgca gaaaagatgg aaaaaaggac
      181 atgtgcactc tgccccaaag atgtcgaata taatgtccta tactttgcac aatcagagaa
      241 tatagctgct catgagaatt gtttgctgta ttcttcagga cttgtggaat gtgaggatca
      301 ggatccactt aatcctgata gaagttttga tgtggaatca gtaaagaaag aaatccagag
      361 aggaaggaag ttgaaatgca aattttgtca taaaagagga gccaccgtgg gatgtgattt
      421 aaaaaactgt aacaagaatt accacttttt ctgtgccaag aaggacgacg cagttccaca
      481 gtctgatgga gttcgaggaa tttataaact gctttgccag caacatgctc aattcccgat
      541 catcgctcaa agtgctaaat tttcaggagt gaaaagaaaa agaggaagga agaaacccct
      601 ctcaggcaat catgtacagc cacccgaaac aatgaaatgt aatacattca taagacaagt
      661 gaaagaagag catggcagac acacagatgc aactgtgaaa gttccttttc ttaagaaatg
      721 caaggaagca ggacttctta attacttact tgaagaaata ttagacaaag ttcattcaat
      781 tccagaaaaa ctcatggatg agactacttc agaatcagac tatgaagaaa tcgggagtgc
      841 actttttgac tgtagattgt tcgaagacac atttgtaaat tttcaagcag caatagagaa
      901 aaaaattcat gcatctcaac aaaggtggca gcagttgaag gaagagattg agctacttca
      961 ggacttaaaa caaaccttgt gctcttttca agaaaataga gatcttatgt caagttctac
     1021 atcaatatca tccctgtctt attagggatt accgtttcct aagccaagag tcatgtcaaa
     1081 ttgcaatcag gctcaaaacc agagaccagg ctgtgaaatc cacacatctt tagaactagt
     1141 cgtctcctct tggcctcagc agctcttccc tgttcttact ggttgacatt ttgatcactc
     1201 tttgcacact cttgtgtttt ttgctcactg tcacattccc agcacctagt atgctcagta
     1261 aatgtttgtg gaataagtgc ataaaatgtt cttaaccttt gattctactt acagcccatg
     1321 atagcctctt agatataata aatttggatt atacta
//
