LOCUS       NM_017816               1554 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens Ly1 antibody reactive (LYAR), transcript variant 1,
            mRNA.
ACCESSION   NM_017816
VERSION     NM_017816.3
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 1554)
  AUTHORS   Zuccato,C., Cosenza,L.C., Zurlo,M., Breveglieri,G., Bianchi,N.,
            Lampronti,I., Gasparello,J., Scapoli,C., Borgatti,M., Finotti,A.
            and Gambari,R.
  TITLE     The rs368698783 (G>A) Polymorphism Affecting LYAR Binding to the
            Agamma-Globin Gene Is Associated with High Fetal Hemoglobin (HbF)
            in beta-Thalassemia Erythroid Precursor Cells Treated with HbF
            Inducers
  JOURNAL   Int J Mol Sci 24 (1), 776 (2023)
   PUBMED   36614221
  REMARK    GeneRIF: The rs368698783 (G>A) Polymorphism Affecting LYAR Binding
            to the Agamma-Globin Gene Is Associated with High Fetal Hemoglobin
            (HbF) in beta-Thalassemia Erythroid Precursor Cells Treated with
            HbF Inducers.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1554)
  AUTHORS   Kim,D.K., Weller,B., Lin,C.W., Sheykhkarimli,D., Knapp,J.J.,
            Dugied,G., Zanzoni,A., Pons,C., Tofaute,M.J., Maseko,S.B.,
            Spirohn,K., Laval,F., Lambourne,L., Kishore,N., Rayhan,A.,
            Sauer,M., Young,V., Halder,H., la Rosa,N.M., Pogoutse,O.,
            Strobel,A., Schwehn,P., Li,R., Rothballer,S.T., Altmann,M.,
            Cassonnet,P., Cote,A.G., Vergara,L.E., Hazelwood,I., Liu,B.B.,
            Nguyen,M., Pandiarajan,R., Dohai,B., Coloma,P.A.R., Poirson,J.,
            Giuliana,P., Willems,L., Taipale,M., Jacob,Y., Hao,T., Hill,D.E.,
            Brun,C., Twizere,J.C., Krappmann,D., Heinig,M., Falter,C., Aloy,P.,
            Demeret,C., Vidal,M., Calderwood,M.A., Roth,F.P. and
            Falter-Braun,P.
  TITLE     A proteome-scale map of the SARS-CoV-2-human contactome
  JOURNAL   Nat Biotechnol 41 (1), 140-149 (2023)
   PUBMED   36217029
REFERENCE   3  (bases 1 to 1554)
  AUTHORS   Chen,L., Jin,C., Liu,H., Feng,R., Li,Z. and Zhang,J.
  TITLE     Analysis of the role of Ly-1 antibody reactive in different cancer
            types
  JOURNAL   Bioengineered 12 (2), 9452-9462 (2021)
   PUBMED   34696677
  REMARK    GeneRIF: Analysis of the role of Ly-1 antibody reactive in
            different cancer types.
REFERENCE   4  (bases 1 to 1554)
  AUTHORS   Zheng,X., Sun,Z., Yu,L., Shi,D., Zhu,M., Yao,H. and Li,L.
  TITLE     Interactome Analysis of the Nucleocapsid Protein of SARS-CoV-2
            Virus
  JOURNAL   Pathogens 10 (9), 1155 (2021)
   PUBMED   34578187
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1554)
  AUTHORS   Lu,X.N., Ju,G.J., Wang,Y.X., Wang,Y.L., Wang,K., Chen,J.L., Cai,W.
            and Zang,Q.W.
  TITLE     LYAR promotes the proliferation of non-small cell lung cancer and
            is associated with poor prognosis
  JOURNAL   Folia Histochem Cytobiol 59 (4), 282-290 (2021)
   PUBMED   34890041
  REMARK    GeneRIF: LYAR promotes the proliferation of non-small cell lung
            cancer and is associated with poor prognosis.
REFERENCE   6  (bases 1 to 1554)
  AUTHORS   Todd,M.A. and Picketts,D.J.
  TITLE     PHF6 interacts with the nucleosome remodeling and deacetylation
            (NuRD) complex
  JOURNAL   J Proteome Res 11 (8), 4326-4337 (2012)
   PUBMED   22720776
REFERENCE   7  (bases 1 to 1554)
  AUTHORS   Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A.,
            Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K.,
            Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and
            Landthaler,M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   8  (bases 1 to 1554)
  AUTHORS   Castello,A., Fischer,B., Eichelbaum,K., Horos,R., Beckmann,B.M.,
            Strein,C., Davey,N.E., Humphreys,D.T., Preiss,T., Steinmetz,L.M.,
            Krijgsveld,J. and Hentze,M.W.
  TITLE     Insights into RNA biology from an atlas of mammalian mRNA-binding
            proteins
  JOURNAL   Cell 149 (6), 1393-1406 (2012)
   PUBMED   22658674
REFERENCE   9  (bases 1 to 1554)
  AUTHORS   Yu,H., Tardivo,L., Tam,S., Weiner,E., Gebreab,F., Fan,C.,
            Svrzikapa,N., Hirozane-Kishikawa,T., Rietman,E., Yang,X.,
            Sahalie,J., Salehi-Ashtiani,K., Hao,T., Cusick,M.E., Hill,D.E.,
            Roth,F.P., Braun,P. and Vidal,M.
  TITLE     Next-generation sequencing to generate interactome datasets
  JOURNAL   Nat Methods 8 (6), 478-480 (2011)
   PUBMED   21516116
REFERENCE   10 (bases 1 to 1554)
  AUTHORS   Su,L., Hershberger,R.J. and Weissman,I.L.
  TITLE     LYAR, a novel nucleolar protein with zinc finger DNA-binding
            motifs, is involved in cell growth regulation
  JOURNAL   Genes Dev 7 (5), 735-748 (1993)
   PUBMED   8491376
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AI418609.1, AK000432.1 and BQ775341.1.
            
            On Nov 22, 2018 this sequence version replaced NM_017816.2.
            
            Transcript Variant: This variant (1) represents the longer
            transcript. Both variants 1 and 2 encode the same protein.
            
            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 :: SRR3476690.610974.1,
                                           SRR5189667.159633.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000343470.9/ ENSP00000345917.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-38                AI418609.1         16-53
            39-1546             AK000432.1         1-1508
            1547-1554           BQ775341.1         16-23               c
FEATURES             Location/Qualifiers
     source          1..1554
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="4"
                     /map="4p16.3"
     gene            1..1554
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /note="Ly1 antibody reactive"
                     /db_xref="GeneID:55646"
                     /db_xref="HGNC:HGNC:26021"
                     /db_xref="MIM:617684"
     exon            1..119
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            120..173
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            174..348
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     CDS             227..1366
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /note="Ly1 antibody reactive homolog"
                     /codon_start=1
                     /product="cell growth-regulating nucleolar protein"
                     /protein_id="NP_060286.1"
                     /db_xref="CCDS:CCDS3374.1"
                     /db_xref="GeneID:55646"
                     /db_xref="HGNC:HGNC:26021"
                     /db_xref="MIM:617684"
                     /translation="MVFFTCNACGESVKKIQVEKHVSVCRNCECLSCIDCGKDFWGDD
                     YKNHVKCISEDQKYGGKGYEGKTHKGDIKQQAWIQKISELIKRPNVSPKVRELLEQIS
                     AFDNVPRKKAKFQNWMKNSLKVHNESILDQVWNIFSEASNSEPVNKEQDQRPLHPVAN
                     PHAEISTKVPASKVKDAVEQQGEVKKNKRERKEERQKKRKREKKELKLENHQENSRNQ
                     KPKKRKKGQEADLEAGGEEVPEANGSAGKRSKKKKQRKDSASEEEARVGAGKRKRRHS
                     EVETDSKKKKMKLPEHPEGGEPEDDEAPAKGKFNWKGTIKAILKQAPDNEITIKKLRK
                     KVLAQYYTVTDEHHRSEEELLVIFNKKISKNPTFKLLKDKVKLVK"
     exon            349..463
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            464..571
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            572..655
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            656..1058
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            1059..1145
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            1146..1231
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     exon            1232..1554
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1529..1534
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /note="hexamer: AATATA"
     polyA_site      1554
                     /gene="LYAR"
                     /gene_synonym="ZC2HC2; ZLYAR"
                     /note="major polyA site"
ORIGIN      
        1 agaagcgaat tctgcaccgc gaagcctgag aggcaggtag ctgcggcgct gggctggcgg
       61 cggcgagtcc acgtgctccc cgcggccggt tgaaaccgtt ggcgggcgct ggctgagagg
      121 caatgtttgc tgtcttccat tggagtgact gaatttctac atgacggctt tttgacaaga
      181 cttaaaacct gtcttggata gagaatattt agccatttac ctaaaaatgg tattttttac
      241 atgcaatgca tgtggtgaat cagtgaagaa aatacaagtg gaaaagcatg tgtctgtttg
      301 cagaaactgt gaatgccttt cttgcattga ctgcggtaaa gatttctggg gcgatgacta
      361 taaaaaccac gtgaaatgca taagtgaaga tcagaagtat ggtggcaaag gctatgaagg
      421 taaaacccac aaaggcgaca tcaaacagca ggcgtggatt cagaaaatta gtgaattaat
      481 aaagagaccc aatgtcagcc ccaaagtgag agaactttta gagcaaatta gtgcttttga
      541 caacgttccc aggaaaaagg caaaatttca gaattggatg aagaacagtt taaaagttca
      601 taatgaatcc attctggacc aggtgtggaa tatcttttct gaagcttcca acagcgaacc
      661 agtcaataag gaacaggatc aacggccact ccacccagtg gcaaatccac atgcagaaat
      721 ctccaccaag gttccagcct ccaaagtgaa agacgccgtg gaacagcaag gggaggtgaa
      781 gaagaataaa agagaaagaa aggaagaacg gcagaagaaa aggaaaagag aaaagaaaga
      841 actaaagtta gaaaaccacc aggaaaactc aaggaatcag aagcctaaga agcgcaaaaa
      901 gggacaggag gctgaccttg aggctggtgg ggaggaagtc cctgaggcca atggctctgc
      961 agggaagagg agcaagaaga agaagcagcg caaggacagc gccagtgagg aagaggcacg
     1021 cgtgggcgca gggaagagga agcggaggca ctcggaagtt gaaacagatt ctaagaagaa
     1081 aaagatgaag ctcccagagc atcctgaggg cggagaacca gaagacgatg aggctcctgc
     1141 aaaaggtaaa ttcaactgga agggaactat taaagcaatt ctgaaacagg ccccagacaa
     1201 tgaaataacc atcaaaaagc taaggaaaaa ggttttagct cagtactaca cagtgacaga
     1261 tgagcatcac agatccgaag aggaactcct ggtcatcttt aacaagaaaa tcagcaagaa
     1321 ccctaccttt aagttattaa aggacaaagt caagcttgtg aaatgaacat ttgtgtattt
     1381 aaaaattgaa tccattctgc tgacttcttc ctttcactgc tgtttataaa atgtgtaatg
     1441 aattctaaca actcaaattt tgctttttga agctgtattt ttaagttaag aaaatatatt
     1501 tttggtataa cttttatgag aaaaataaaa tatattctgg tccaaacttc taaa
//
