LOCUS       NM_020680               2636 bp    mRNA    linear   PRI 29-OCT-2024
DEFINITION  Homo sapiens SCY1 like pseudokinase 1 (SCYL1), transcript variant
            A, mRNA.
ACCESSION   NM_020680 NM_001134680
VERSION     NM_020680.4
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 2636)
  AUTHORS   Zhao,Z., Liu,J., Gao,X., Chen,Z., Hu,Y., Chen,J., Zang,W. and
            Xue,W.
  TITLE     SCYL1-mediated regulation of the mTORC1 signaling pathway inhibits
            autophagy and promotes gastric cancer metastasis
  JOURNAL   J Cancer Res Clin Oncol 150 (10), 456 (2024)
   PUBMED   39394539
  REMARK    GeneRIF: SCYL1-mediated regulation of the mTORC1 signaling pathway
            inhibits autophagy and promotes gastric cancer metastasis.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2636)
  AUTHORS   Sun,A., Tian,X., Yang,W. and Lin,Q.
  TITLE     Overexpression of SCYL1 Is Associated with Progression of Breast
            Cancer
  JOURNAL   Curr Oncol 29 (10), 6922-6932 (2022)
   PUBMED   36290821
  REMARK    GeneRIF: Overexpression of SCYL1 Is Associated with Progression of
            Breast Cancer.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2636)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   4  (bases 1 to 2636)
  AUTHORS   Benz,C., Ali,M., Krystkowiak,I., Simonetti,L., Sayadi,A.,
            Mihalic,F., Kliche,J., Andersson,E., Jemth,P., Davey,N.E. and
            Ivarsson,Y.
  TITLE     Proteome-scale mapping of binding sites in the unstructured regions
            of the human proteome
  JOURNAL   Mol Syst Biol 18 (1), e10584 (2022)
   PUBMED   35044719
REFERENCE   5  (bases 1 to 2636)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   6  (bases 1 to 2636)
  AUTHORS   Bohlson,S.S., Zhang,M., Ortiz,C.E. and Tenner,A.J.
  TITLE     CD93 interacts with the PDZ domain-containing adaptor protein GIPC:
            implications in the modulation of phagocytosis
  JOURNAL   J Leukoc Biol 77 (1), 80-89 (2005)
   PUBMED   15459234
REFERENCE   7  (bases 1 to 2636)
  AUTHORS   Di,Y., Li,J., Fang,J., Xu,Z., He,X., Zhang,F., Ling,J., Li,X.,
            Xu,D., Li,L., Li,Y.Y. and Huo,K.
  TITLE     Cloning and characterization of a novel gene which encodes a
            protein interacting with the mitosis-associated kinase-like protein
            NTKL
  JOURNAL   J Hum Genet 48 (6), 315-321 (2003)
   PUBMED   12783284
REFERENCE   8  (bases 1 to 2636)
  AUTHORS   Kato,M., Yano,K., Morotomi-Yano,K., Saito,H. and Miki,Y.
  TITLE     Identification and characterization of the human protein
            kinase-like gene NTKL: mitosis-specific centrosomal localization of
            an alternatively spliced isoform
  JOURNAL   Genomics 79 (6), 760-767 (2002)
   PUBMED   12036289
  REMARK    GeneRIF: NTKL is involved in centrosome-related cellular functions
REFERENCE   9  (bases 1 to 2636)
  AUTHORS   Liu,S.C., Lane,W.S. and Lienhard,G.E.
  TITLE     Cloning and preliminary characterization of a 105 kDa protein with
            an N-terminal kinase-like domain
  JOURNAL   Biochim Biophys Acta 1517 (1), 148-152 (2000)
   PUBMED   11118629
REFERENCE   10 (bases 1 to 2636)
  AUTHORS   van Asseldonk,M., Schepens,M., de Bruijn,D., Janssen,B., Merkx,G.
            and Geurts van Kessel,A.
  TITLE     Construction of a 350-kb sequence-ready 11q13 cosmid contig
            encompassing the markers D11S4933 and D11S546: mapping of 11 genes
            and 3 tumor-associated translocation breakpoints
  JOURNAL   Genomics 66 (1), 35-42 (2000)
   PUBMED   10843802
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BP281963.1 and BC069233.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_020680.3.
            
            Summary: This gene encodes a transcriptional regulator belonging to
            the SCY1-like family of kinase-like proteins. The protein has a
            divergent N-terminal kinase domain that is thought to be
            catalytically inactive, and can bind specific DNA sequences through
            its C-terminal domain. It activates transcription of the telomerase
            reverse transcriptase and DNA polymerase beta genes. The protein
            has been localized to the nucleus, and also to the cytoplasm and
            centrosomes during mitosis. Multiple transcript variants encoding
            different isoforms have been found for this gene. [provided by
            RefSeq, Jul 2008].
            
            Transcript Variant: This variant (A) represents the longer
            transcript and encodes the longer isoform (A).
            
            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 :: SRR3476690.675577.1,
                                           SRR3476690.1173808.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000270176.10/ ENSP00000270176.5
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-30                BP281963.1         9-38
            31-2636             BC069233.1         1-2606
FEATURES             Location/Qualifiers
     source          1..2636
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q13.1"
     gene            1..2636
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /note="SCY1 like pseudokinase 1"
                     /db_xref="GeneID:57410"
                     /db_xref="HGNC:HGNC:14372"
                     /db_xref="MIM:607982"
     exon            1..182
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     CDS             72..2498
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /note="isoform A is encoded by transcript variant A;
                     telomerase transcriptional elements-interacting factor;
                     likely ortholog of mouse N-terminal kinase-like protein;
                     teratoma-associated tyrosine kinase; telomerase
                     regulation-associated protein; SCY1-like protein 1; coated
                     vesicle-associated kinase of 90 kDa; SCY1-like,
                     kinase-like 1"
                     /codon_start=1
                     /product="N-terminal kinase-like protein isoform A"
                     /protein_id="NP_065731.3"
                     /db_xref="CCDS:CCDS41672.1"
                     /db_xref="GeneID:57410"
                     /db_xref="HGNC:HGNC:14372"
                     /db_xref="MIM:607982"
                     /translation="MWFFARDPVRDFPFELIPEPPEGGLPGPWALHRGRKKATGSPVS
                     IFVYDVKPGAEEQTQVAKAAFKRFKTLRHPNILAYIDGLETEKCLHVVTEAVTPLGIY
                     LKARVEAGGLKELEISWGLHQIVKALSFLVNDCSLIHNNVCMAAVFVDRAGEWKLGGL
                     DYMYSAQGNGGGPPRKGIPELEQYDPPELADSSGRVVREKWSADMWRLGCLIWEVFNG
                     PLPRAAALRNPGKIPKTLVPHYCELVGANPKVRPNPARFLQNCRAPGGFMSNRFVETN
                     LFLEEIQIKEPAEKQKFFQELSKSLDAFPEDFCRHKVLPQLLTAFEFGNAGAVVLTPL
                     FKVGKFLSAEEYQQKIIPVVVKMFSSTDRAMRIRLLQQMEQFIQYLDEPTVNTQIFPH
                     VVHGFLDTNPAIREQTVKSMLLLAPKLNEANLNVELMKHFARLQAKDEQGPIRCNTTV
                     CLGKIGSYLSASTRHRVLTSAFSRATRDPFAPSRVAGVLGFAATHNLYSMNDCAQKIL
                     PVLCGLTVDPEKSVRDQAFKAIRSFLSKLESVSEDPTQLEEVEKDVHAASSPGMGGAA
                     ASWAGWAVTGVSSLTSKLIRSHPTTAPTETNIPQRPTPEGVPAPAPTPVPATPTTSGH
                     WETQEEDKDTAEDSSTADRWDDEDWGSLEQEAESVLAQQDDWSTGGQVSRASQVSNSD
                     HKSSKSPESDWSSWEAEGSWEQGWQEPSSQEPPPDGTRLASEYNWGGPESSDKGDPFA
                     TLSARPSTQPRPDSWGEDNWEGLETDSRQVKAELARKKREERRREMEAKRAERKVAKG
                     PMKLGARKLD"
     exon            183..323
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            324..446
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            447..673
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            674..764
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            765..920
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            921..1079
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            1080..1187
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            1188..1301
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            1302..1457
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            1458..1646
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            1647..1722
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            1723..1887
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            1888..2030
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            2031..2102
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            2103..2318
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            2319..2373
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     exon            2374..2636
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2619..2624
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /note="hexamer: AATAAA"
     polyA_site      2636
                     /gene="SCYL1"
                     /gene_synonym="GKLP; HT019; NKTL; NTKL; P105; SCAR21;
                     TAPK; TEIF; TRAP"
                     /note="major polyA site"
ORIGIN      
        1 gccccgcccc ggctcgggcg gccggaggac ccggagctaa ggcgcccgaa cccgcggcgg
       61 cggtggggac gatgtggttc tttgcccggg acccggtccg ggactttccg ttcgagctca
      121 tcccggagcc cccagagggc ggcctgcccg ggccctgggc cctgcaccgc ggccgcaaga
      181 aggccacagg cagccccgtg tccatcttcg tctatgatgt gaagcctggc gcggaagagc
      241 agacccaggt ggccaaagct gccttcaagc gcttcaaaac tctacggcac cccaacatcc
      301 tggcttacat cgatggactg gagacagaaa aatgcctcca cgtcgtgaca gaggctgtga
      361 ccccgttggg aatatacctc aaggcgagag tggaggctgg tggcctgaag gagctggaga
      421 tctcctgggg gctacaccag atcgtgaaag ccctcagctt cctggtcaac gactgcagcc
      481 tcatccacaa caatgtctgc atggccgccg tgttcgtgga ccgagctggc gagtggaagc
      541 ttgggggcct ggactacatg tattcggccc agggcaacgg tgggggacct ccccgcaagg
      601 ggatccccga gcttgagcag tatgaccccc cggagttggc tgacagcagt ggcagagtgg
      661 tcagagagaa gtggtcagca gacatgtggc gcttgggctg cctcatttgg gaagtcttca
      721 atgggcccct acctcgggca gcagccctac gcaaccctgg gaagatcccc aaaacgctgg
      781 tgccccatta ctgtgagctg gtgggagcaa accccaaggt gcgtcccaac ccagcccgct
      841 tcctgcagaa ctgccgggca cctggtggct tcatgagcaa ccgctttgta gaaaccaacc
      901 tcttcctgga ggagattcag atcaaagagc cagccgagaa gcaaaaattc ttccaggagc
      961 tgagcaagag cctggacgca ttccctgagg atttctgtcg gcacaaggtg ctgccccagc
     1021 tgctgaccgc cttcgagttc ggcaatgctg gggccgttgt cctcacgccc ctcttcaagg
     1081 tgggcaagtt cctgagcgct gaggagtatc agcagaagat catccctgtg gtggtcaaga
     1141 tgttctcatc cactgaccgg gccatgcgca tccgcctcct gcagcagatg gagcagttca
     1201 tccagtacct tgacgagcca acagtcaaca cccagatctt cccccacgtc gtacatggct
     1261 tcctggacac caaccctgcc atccgggagc agacggtcaa gtccatgctg ctcctggccc
     1321 caaagctgaa cgaggccaac ctcaatgtgg agctgatgaa gcactttgca cggctacagg
     1381 ccaaggatga acagggcccc atccgctgca acaccacagt ctgcctgggc aaaatcggct
     1441 cctacctcag tgctagcacc agacacaggg tccttacctc tgccttcagc cgagccacta
     1501 gggacccgtt tgcaccgtcc cgggttgcgg gtgtcctggg ctttgctgcc acccacaacc
     1561 tctactcaat gaacgactgt gcccagaaga tcctgcctgt gctctgcggt ctcactgtag
     1621 atcctgagaa atccgtgcga gaccaggcct tcaaggccat tcggagcttc ctgtccaaat
     1681 tggagtctgt gtcggaggac ccgacccagc tggaggaagt ggagaaggat gtccatgcag
     1741 cctccagccc tggcatggga ggagccgcag ctagctgggc aggctgggcc gtgaccgggg
     1801 tctcctcact cacctccaag ctgatccgtt cgcacccaac cactgcccca acagaaacca
     1861 acattcccca aagacccacg cctgaaggag ttcctgcccc agcccccacc cctgttcctg
     1921 ccacccctac aacctcaggc cactgggaga cgcaggagga ggacaaggac acagcagagg
     1981 acagcagcac tgctgacaga tgggacgacg aagactgggg cagcctggag caggaggccg
     2041 agtctgtgct ggcccagcag gacgactgga gcaccggggg ccaagtgagc cgtgctagtc
     2101 aggtcagcaa ctccgaccac aaatcctcca aatccccaga gtccgactgg agcagctggg
     2161 aagctgaggg ctcctgggaa cagggctggc aggagccaag ctcccaggag ccacctcctg
     2221 acggtacacg gctggccagc gagtataact ggggtggccc agagtccagc gacaagggcg
     2281 accccttcgc taccctgtct gcacgtccca gcacccagcc gaggccagac tcttggggtg
     2341 aggacaactg ggagggcctc gagactgaca gtcgacaggt caaggctgag ctggcccgga
     2401 agaagcgcga ggagcggcgg cgggagatgg aggccaaacg cgccgagagg aaggtggcca
     2461 agggccccat gaagctggga gcccggaagc tggactgaac cgtggcggtg gcccttcccg
     2521 gctgcggaga gcccgcccca cagatgtatt tattgtacaa accatgtgag cccggccggc
     2581 ccagccaggc catctcacgt gtacataatc agagccacaa taaattctat ttcaca
//
