LOCUS       NM_019079               3831 bp    mRNA    linear   PRI 13-MAY-2024
DEFINITION  Homo sapiens LINE1 type transposase domain containing 1 (L1TD1),
            transcript variant 2, mRNA.
ACCESSION   NM_019079
VERSION     NM_019079.5
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 3831)
  AUTHORS   Jin,S.W., Seong,Y., Yoon,D., Kwon,Y.S. and Song,H.
  TITLE     Dissolution of ribonucleoprotein condensates by the embryonic stem
            cell protein L1TD1
  JOURNAL   Nucleic Acids Res 52 (6), 3310-3326 (2024)
   PUBMED   38165001
  REMARK    GeneRIF: Dissolution of ribonucleoprotein condensates by the
            embryonic stem cell protein L1TD1.
REFERENCE   2  (bases 1 to 3831)
  AUTHORS   Bandesh,K., Traurig,M., Chen,P., Hsueh,W.C., Hanson,R.L., Piaggi,P.
            and Baier,L.J.
  TITLE     Identification and characterization of the long non-coding RNA
            NFIA-AS2 as a novel locus for body mass index in American Indians
  JOURNAL   Int J Obes (Lond) 47 (6), 434-442 (2023)
   PUBMED   36806387
  REMARK    GeneRIF: Identification and characterization of the long non-coding
            RNA NFIA-AS2 as a novel locus for body mass index in American
            Indians.
REFERENCE   3  (bases 1 to 3831)
  AUTHORS   Casarotto,M., Lupato,V., Giurato,G., Guerrieri,R., Sulfaro,S.,
            Salvati,A., D'Angelo,E., Furlan,C., Menegaldo,A., Baboci,L.,
            Montico,B., Turturici,I., Dolcetti,R., Romeo,S., Baggio,V.,
            Corrado,S., Businello,G., Guido,M., Weisz,A., Giacomarra,V.,
            Franchin,G., Steffan,A., Sigalotti,L., Vaccher,E.,
            Boscolo-Rizzo,P., Jerry,P., Fanetti,G. and Fratta,E.
  TITLE     LINE-1 hypomethylation is associated with poor outcomes in
            locoregionally advanced oropharyngeal cancer
  JOURNAL   Clin Epigenetics 14 (1), 171 (2022)
   PUBMED   36503584
  REMARK    GeneRIF: LINE-1 hypomethylation is associated with poor outcomes in
            locoregionally advanced oropharyngeal cancer.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3831)
  AUTHORS   Kuriyama,Y., Shimizu,A., Kim,J., Yasuda,M. and Motegi,S.I.
  TITLE     The differential expression of long interspersed nuclear elements-1
            as a marker for hypomethylation in Merkel cell carcinoma
  JOURNAL   Clin Exp Dermatol 47 (9), 1726-1728 (2022)
   PUBMED   35596537
  REMARK    GeneRIF: The differential expression of long interspersed nuclear
            elements-1 as a marker for hypomethylation in Merkel cell
            carcinoma.
REFERENCE   5  (bases 1 to 3831)
  AUTHORS   Huang,Y., Xu,F., Mei,S., Liu,X., Zhao,F., Wei,L., Fan,Z., Hu,Y.,
            Wang,L., Ai,B., Cen,S., Liang,C. and Guo,F.
  TITLE     MxB inhibits long interspersed element type 1 retrotransposition
  JOURNAL   PLoS Genet 18 (2), e1010034 (2022)
   PUBMED   35171907
  REMARK    GeneRIF: MxB inhibits long interspersed element type 1
            retrotransposition.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3831)
  AUTHORS   Shigaki,H., Baba,Y., Watanabe,M., Murata,A., Iwagami,S., Miyake,K.,
            Ishimoto,T., Iwatsuki,M. and Baba,H.
  TITLE     LINE-1 hypomethylation in gastric cancer, detected by bisulfite
            pyrosequencing, is associated with poor prognosis
  JOURNAL   Gastric Cancer 16 (4), 480-487 (2013)
   PUBMED   23179365
  REMARK    GeneRIF: LINE-1 hypomethylation in gastric cancer is associated
            with shorter survival, suggesting that it has potential for use as
            a prognostic biomarker.
REFERENCE   7  (bases 1 to 3831)
  AUTHORS   Cash,H.L., Tao,L., Yuan,J.M., Marsit,C.J., Houseman,E.A.,
            Xiang,Y.B., Gao,Y.T., Nelson,H.H. and Kelsey,K.T.
  TITLE     LINE-1 hypomethylation is associated with bladder cancer risk among
            nonsmoking Chinese
  JOURNAL   Int J Cancer 130 (5), 1151-1159 (2012)
   PUBMED   21445976
  REMARK    GeneRIF: there was no significant association of LINE-1 methylation
            with case status, although reduced LINE-1 methylation was
            associated with increased risk of bladder cancer among never
            smokers
REFERENCE   8  (bases 1 to 3831)
  AUTHORS   Narva,E., Rahkonen,N., Emani,M.R., Lund,R., Pursiheimo,J.P.,
            Nasti,J., Autio,R., Rasool,O., Denessiouk,K., Lahdesmaki,H., Rao,A.
            and Lahesmaa,R.
  TITLE     RNA-binding protein L1TD1 interacts with LIN28 via RNA and is
            required for human embryonic stem cell self-renewal and cancer cell
            proliferation
  JOURNAL   Stem Cells 30 (3), 452-460 (2012)
   PUBMED   22162396
  REMARK    GeneRIF: L1TD1 is part of the L1TD1-RHA-LIN28 complex that could
            influence levels of OCT4, suggesting that L1TD1 has an important
            role in the regulation of stemness.
REFERENCE   9  (bases 1 to 3831)
  AUTHORS   Wong,R.C., Ibrahim,A., Fong,H., Thompson,N., Lock,L.F. and
            Donovan,P.J.
  TITLE     L1TD1 is a marker for undifferentiated human embryonic stem cells
  JOURNAL   PLoS One 6 (4), e19355 (2011)
   PUBMED   21559406
  REMARK    GeneRIF: L1TD1 is a downstream target of Nanog and represents a
            useful marker for identifying undifferentiated hESC
            Publication Status: Online-Only
REFERENCE   10 (bases 1 to 3831)
  AUTHORS   Yamamoto,E., Toyota,M., Suzuki,H., Kondo,Y., Sanomura,T.,
            Murayama,Y., Ohe-Toyota,M., Maruyama,R., Nojima,M., Ashida,M.,
            Fujii,K., Sasaki,Y., Hayashi,N., Mori,M., Imai,K., Tokino,T. and
            Shinomura,Y.
  TITLE     LINE-1 hypomethylation is associated with increased CpG island
            methylation in Helicobacter pylori-related enlarged-fold gastritis
  JOURNAL   Cancer Epidemiol Biomarkers Prev 17 (10), 2555-2564 (2008)
   PUBMED   18842996
  REMARK    GeneRIF: LINE-1 hypomethylation is significantly associated with
            CpG island hypermethylation in EF+ gastritis.
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CX167172.1, DR005055.1, AK001973.1, AB211065.1, CN428323.1,
            BX382228.2 and BU677875.1.
            
            On Nov 23, 2018 this sequence version replaced NM_019079.4.
            
            Transcript Variant: This variant (2) differs in the 5' UTR compared
            to variant 1. 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 :: BC060808.1, AB211065.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968968, SAMEA2142670
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000498273.2/ ENSP00000419901.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-191               CX167172.1         48-238
            192-625             DR005055.1         126-559
            626-1797            AK001973.1         599-1770
            1798-2442           AB211065.1         1783-2427
            2443-3127           CN428323.1         149-833
            3128-3449           BX382228.2         347-668             c
            3450-3475           BU677875.1         374-399             c
            3476-3831           BU677875.1         17-372              c
FEATURES             Location/Qualifiers
     source          1..3831
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p31.3"
     gene            1..3831
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /note="LINE1 type transposase domain containing 1"
                     /db_xref="GeneID:54596"
                     /db_xref="HGNC:HGNC:25595"
     exon            1..73
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /inference="alignment:Splign:2.1.0"
     exon            74..167
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /inference="alignment:Splign:2.1.0"
     exon            168..1285
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /inference="alignment:Splign:2.1.0"
     CDS             278..2875
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /note="ES cell-associated protein 11; LINE-1 type
                     transposase domain containing 1"
                     /codon_start=1
                     /product="LINE-1 type transposase domain-containing
                     protein 1"
                     /protein_id="NP_061952.3"
                     /db_xref="CCDS:CCDS619.1"
                     /db_xref="GeneID:54596"
                     /db_xref="HGNC:HGNC:25595"
                     /translation="MSDVSTSVQSKFARLAKKKENITYMKREQLTETDKDIAPVLDLK
                     CKDVSAIMNKFKVLMEIQDLMFEEMRETLKNDLKAVLGGKATIPEVKNSENSSSRTEF
                     QQIINLALQKTGMVGKIEGENSKIGDDNENLTFKLEVNELSGKLDNTNEYNSNDGKKL
                     PQGESRSYEVMGSMEETLCNIDDRDGNRNVHLEFTERESRKDGEDEFVKEMREERKFQ
                     KLKNKEEVLKASREEKVLMDEGAVLTLVADLSSATLDISKQWSNVFNILRENDFEPKF
                     LCEVKLAFKCDGEIKTFSDLQSLRKFASQKSSVKELLKDVLPQKEEINQGGRKYGIQE
                     KRDKTLIDSKHRAGEITSDGLSFLFLKEVKVAKPEEMKNLETQEEEFSELEELDEEAS
                     GMEDDEDTSGLEEEEEEPSGLEEEEEEEASGLEEDEASGLEEEEEQTSEQDSTFQGHT
                     LVDAKHEVEITSDGMETTFIDSVEDSESEEEEEGKSSETGKVKTTSLTEKKASRRQKE
                     IPFSYLVGDSGKKKLVKHQVVHKTQEEEETAVPTSQGTGTPCLTLCLASPSKSLEMSH
                     DEHKKHSHTNLSISTGVTKLKKTEEKKHRTLHTEELTSKEADLTEETEENLRSSVINS
                     IREIKEEIGNLKSSHSGVLEIENSVDDLSSRMDILEERIDSLEDQIEEFSKDTMQMTK
                     QIISKERQRDIEERSRSCNIRLIGIPEKESYENRAEDIIKEIIDENFAELKKGSSLEI
                     VSACRVPSKIDEKRLTPRHILVKFWNSSDKEKIIRASRERREITYQGTRIRLTADLSL
                     DTLDARSKWSNVFKVLLEKGFNPRILYPAKMAFDFRGKTKVFLSIEEFRDYVLHMPTL
                     RELLGNNIP"
     exon            1286..3831
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3811..3816
                     /regulatory_class="polyA_signal_sequence"
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /note="hexamer: ATTAAA"
     polyA_site      3831
                     /gene="L1TD1"
                     /gene_synonym="ECAT11"
                     /note="major polyA site"
ORIGIN      
        1 agtccttagt tacaaggctc catcctcact ttgttcgctc ctcagtcgtc caggcggatt
       61 cctttttcgc caggcaccaa ggcacagctt agagtagacc cgagtcctgc tctgcggagt
      121 tcgtcttccc agcgaaggta cagaggcgga tgaactgctg agacttgatt gacgtatttt
      181 aagatttttt taacttctga agtctagcag gcctgtaaga acaaaaatca ttctgtagga
      241 attaaaaaca gaatccagtc ttgacaacat atccacaatg tctgatgtat ctactagtgt
      301 acaatcaaaa tttgctagac ttgcaaagaa aaaggaaaat atcacctata tgaaaagaga
      361 gcagttaaca gaaactgata aggacatagc tccggtatta gatttaaaat gcaaggacgt
      421 atcagcaatt atgaataagt ttaaggtctt aatggaaatt caagacctga tgtttgagga
      481 gatgagggaa actcttaaaa atgacctaaa agcagtttta gggggaaaag ctacaatacc
      541 tgaggtaaag aattcagaga actccagtag taggacagag tttcagcaaa taatcaattt
      601 agcattacaa aaaacaggga tggtagggaa aatagaagga gaaaactcta aaataggtga
      661 tgataatgaa aatttaacct ttaaattaga agtaaatgag ctgagtggta aattagacaa
      721 cactaacgaa tacaatagta atgatggtaa gaaattaccc cagggtgaat cacgaagtta
      781 cgaagtcatg ggaagtatgg aagaaacctt atgcaatata gatgacagag atggaaatcg
      841 caatgtccat ttagaattta cagaaagaga gagtaggaag gatggagagg atgaatttgt
      901 caaagaaatg agagaggaaa gaaaatttca gaaattgaag aataaagagg aggttttaaa
      961 agcctccaga gaagaaaaag tgttgatgga tgaaggagca gtacttaccc tggtagccga
     1021 cctttcatca gcaacactgg atattagtaa gcaatggagt aatgtcttca acattctgag
     1081 agaaaatgat tttgaaccta aatttctgtg tgaagttaaa ttagcattta aatgtgatgg
     1141 tgaaataaag acattttcag atctgcaaag ccttagaaaa tttgccagcc aaaaatcttc
     1201 tgtgaaagaa ttactgaaag atgtactccc acaaaaggaa gaaataaatc aaggaggaag
     1261 aaaatatgga attcaagaaa aaagggataa aaccctaata gactcaaagc atagagctgg
     1321 agaaataacc agtgatggct tgagcttcct atttcttaaa gaagtaaaag ttgctaagcc
     1381 agaggagatg aaaaacttag agactcaaga ggaagagttt tccgagctag aggagctgga
     1441 tgaagaggcc tcagggatgg aggatgatga agatacctca gggctggagg aggaggagga
     1501 agagccctca gggctggagg aggaagaaga agaagaggct tcagggttgg aggaggatga
     1561 ggcctcaggg ctagaggagg aagaggaaca gacttcagaa caggactcaa cctttcaggg
     1621 tcatactttg gtagatgcaa agcatgaagt tgagataacc agtgatggca tggaaactac
     1681 tttcattgac tctgtagagg attctgaatc agaggaggaa gaagaaggaa agagctctga
     1741 aacaggaaag gtaaagacta cctccctgac tgagaaaaaa gcctcacgta gacaaaaaga
     1801 aattcccttt agttatttgg ttggggactc tgggaagaaa aagttggtga aacaccaggt
     1861 ggtgcacaaa acccaggagg aagaggaaac agctgtgccc acaagtcaag gaactggcac
     1921 accctgtctg accttatgtt tggcctctcc ctcaaagtca ctagagatga gtcatgatga
     1981 gcataaaaag cattcacata caaatttgag tatttcaaca ggagtcacca aacttaagaa
     2041 aacagaagaa aagaaacaca gaactctgca cacagaagaa ctaacatcca aagaagcaga
     2101 cttaacagag gaaacagaag aaaacttgag aagtagtgtg attaatagca tcagagagat
     2161 aaaagaggag attggaaatt tgaaaagttc ccattcaggt gtcttggaaa ttgaaaattc
     2221 agtagatgat ctgagtagca gaatggacat acttgaagaa agaatagaca gtctagaaga
     2281 tcaaattgaa gaattctcta aggatacaat gcaaatgacc aaacagataa ttagtaaaga
     2341 aaggcaaaga gatatagagg agagatctag aagttgcaac attcgtttga taggaattcc
     2401 agaaaaggag agttatgaga atagggcaga ggacataatt aaagaaataa ttgatgaaaa
     2461 ctttgcagaa ctaaagaaag gttcaagtct tgagattgtc agtgcttgtc gagtacctag
     2521 taaaattgat gaaaagagac tgactcctag acacatcttg gtgaaatttt ggaattctag
     2581 tgataaagag aaaataataa gggcttctag agagagaaga gaaattacct accaaggaac
     2641 aagaatcagg ttgacagcag acttatcact ggacacactg gatgctagaa gtaaatggag
     2701 caatgtcttc aaagttctgc tggaaaaagg ctttaatcct agaatcctat atccagccaa
     2761 aatggcattt gattttaggg gtaaaacaaa ggtatttctt agtattgaag aatttagaga
     2821 ttatgttttg catatgccca ccttgagaga attactgggg aataatatac cttagcacgc
     2881 cagggtgact acaaacaata tgctttcctc ccccagcatg catccaaaaa tcaacaagta
     2941 aaacgaaaat acacttctac ccagaaggat ggacagctaa tagcgtactt ggggatgagg
     3001 agcaaggaat attacagata ttacctagat gttaataaag ggtatgttta aaaaaaatag
     3061 gctggtctca atgtagtgag ttatttcagt tgatcacagt cagttacaga tagaattcct
     3121 tgttttactt cccccccacc acctccctac tgcagttgac tagtcttttt agaatttata
     3181 ttatctggct gggcacggtg gctcacacct gtaatcccag cactttggga ggccgaggcg
     3241 ggtggatcac gaggtcagga gatcgagacc atcctggcta acacagtgaa accccgtctc
     3301 tactaaaaat aaaaaaaatt agccgggcat ggtggcgggc gcctgtagtc ccagctactt
     3361 gggaggctga ggcaggagaa tggcgtgaac ccaggaggcg gagcttgcag tgagccgaga
     3421 tcacaccact gcactccagc cggagccaca gagcgacact ccgtctcaaa aaaaagtata
     3481 ttgtgctagc ttgtctaaga ataaacttct atactgttgg gggagggctg cacctgtcaa
     3541 gataacctgt caatgtagta ggaaaacagg aggggacagt aacagaaaag cacgggaaaa
     3601 gatggcaagg ttagttaaaa tagaaaagtg ctcagttcct catacctgta atcccagcag
     3661 tttagggggc caaggcaggt gggtcacttg agcccaagag ttcaaggcca tcctgggcaa
     3721 tgtggcgaaa gtgtctacaa aaaaatacaa aaagaggaag aaatgatatt tcacaagttt
     3781 gtatcatttg tcatgatgtg actcgaatat attaaatctt tttcctttga a
//
