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LOCUS NM_001298111 2401 bp mRNA linear INV 26-DEC-2023 arthropod-specific, member 9 (SmydA-9), transcript variant B, mRNA. ACCESSION NM_001298111 VERSION NM_001298111.1 DBLINK BioProject: PRJNA164 BioSample: SAMN02803731 KEYWORDS RefSeq. SOURCE Drosophila melanogaster (fruit fly) ORGANISM Drosophila melanogaster Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora. REFERENCE 1 (bases 1 to 2401) AUTHORS Matthews,B.B., Dos Santos,G., Crosby,M.A., Emmert,D.B., St Pierre,S.E., Gramates,L.S., Zhou,P., Schroeder,A.J., Falls,K., Strelets,V., Russo,S.M. and Gelbart,W.M. CONSRTM FlyBase Consortium TITLE Gene Model Annotations for Drosophila melanogaster: Impact of High-Throughput Data JOURNAL G3 (Bethesda) 5 (8), 1721-1736 (2015) PUBMED 26109357 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 2401) AUTHORS Crosby,M.A., Gramates,L.S., Dos Santos,G., Matthews,B.B., St Pierre,S.E., Zhou,P., Schroeder,A.J., Falls,K., Emmert,D.B., Russo,S.M. and Gelbart,W.M. CONSRTM FlyBase Consortium TITLE Gene Model Annotations for Drosophila melanogaster: The Rule-Benders JOURNAL G3 (Bethesda) 5 (8), 1737-1749 (2015) PUBMED 26109356 REMARK Publication Status: Online-Only REFERENCE 3 (bases 1 to 2401) AUTHORS Hoskins,R.A., Carlson,J.W., Wan,K.H., Park,S., Mendez,I., Galle,S.E., Booth,B.W., Pfeiffer,B.D., George,R.A., Svirskas,R., Krzywinski,M., Schein,J., Accardo,M.C., Damia,E., Messina,G., Mendez-Lago,M., de Pablos,B., Demakova,O.V., Andreyeva,E.N., Boldyreva,L.V., Marra,M., Carvalho,A.B., Dimitri,P., Villasante,A., Zhimulev,I.F., Rubin,G.M., Karpen,G.H. and Celniker,S.E. TITLE The Release 6 reference sequence of the Drosophila melanogaster genome JOURNAL Genome Res 25 (3), 445-458 (2015) PUBMED 25589440 REFERENCE 4 (bases 1 to 2401) AUTHORS Hoskins,R.A., Carlson,J.W., Kennedy,C., Acevedo,D., Evans-Holm,M., Frise,E., Wan,K.H., Park,S., Mendez-Lago,M., Rossi,F., Villasante,A., Dimitri,P., Karpen,G.H. and Celniker,S.E. TITLE Sequence finishing and mapping of Drosophila melanogaster heterochromatin JOURNAL Science 316 (5831), 1625-1628 (2007) PUBMED 17569867 REFERENCE 5 (bases 1 to 2401) AUTHORS Smith,C.D., Shu,S., Mungall,C.J. and Karpen,G.H. TITLE The Release 5.1 annotation of Drosophila melanogaster heterochromatin JOURNAL Science 316 (5831), 1586-1591 (2007) PUBMED 17569856 REMARK Erratum:[Science. 2007 Sep 7;317(5843):1325] REFERENCE 6 (bases 1 to 2401) AUTHORS Quesneville,H., Bergman,C.M., Andrieu,O., Autard,D., Nouaud,D., Ashburner,M. and Anxolabehere,D. TITLE Combined evidence annotation of transposable elements in genome sequences JOURNAL PLoS Comput Biol 1 (2), 166-175 (2005) PUBMED 16110336 REFERENCE 7 (bases 1 to 2401) AUTHORS Hoskins,R.A., Smith,C.D., Carlson,J.W., Carvalho,A.B., Halpern,A., Kaminker,J.S., Kennedy,C., Mungall,C.J., Sullivan,B.A., Sutton,G.G., Yasuhara,J.C., Wakimoto,B.T., Myers,E.W., Celniker,S.E., Rubin,G.M. and Karpen,G.H. TITLE Heterochromatic sequences in a Drosophila whole-genome shotgun assembly JOURNAL Genome Biol 3 (12), RESEARCH0085 (2002) PUBMED 12537574 REFERENCE 8 (bases 1 to 2401) AUTHORS Kaminker,J.S., Bergman,C.M., Kronmiller,B., Carlson,J., Svirskas,R., Patel,S., Frise,E., Wheeler,D.A., Lewis,S.E., Rubin,G.M., Ashburner,M. and Celniker,S.E. TITLE The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective JOURNAL Genome Biol 3 (12), RESEARCH0084 (2002) PUBMED 12537573 REFERENCE 9 (bases 1 to 2401) AUTHORS Misra,S., Crosby,M.A., Mungall,C.J., Matthews,B.B., Campbell,K.S., Hradecky,P., Huang,Y., Kaminker,J.S., Millburn,G.H., Prochnik,S.E., Smith,C.D., Tupy,J.L., Whitfied,E.J., Bayraktaroglu,L., Berman,B.P., Bettencourt,B.R., Celniker,S.E., de Grey,A.D., Drysdale,R.A., Harris,N.L., Richter,J., Russo,S., Schroeder,A.J., Shu,S.Q., Stapleton,M., Yamada,C., Ashburner,M., Gelbart,W.M., Rubin,G.M. and Lewis,S.E. TITLE Annotation of the Drosophila melanogaster euchromatic genome: a systematic review JOURNAL Genome Biol 3 (12), RESEARCH0083 (2002) PUBMED 12537572 REFERENCE 10 (bases 1 to 2401) AUTHORS Celniker,S.E., Wheeler,D.A., Kronmiller,B., Carlson,J.W., Halpern,A., Patel,S., Adams,M., Champe,M., Dugan,S.P., Frise,E., Hodgson,A., George,R.A., Hoskins,R.A., Laverty,T., Muzny,D.M., Nelson,C.R., Pacleb,J.M., Park,S., Pfeiffer,B.D., Richards,S., Sodergren,E.J., Svirskas,R., Tabor,P.E., Wan,K., Stapleton,M., Sutton,G.G., Venter,C., Weinstock,G., Scherer,S.E., Myers,E.W., Gibbs,R.A. and Rubin,G.M. TITLE Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence JOURNAL Genome Biol 3 (12), RESEARCH0079 (2002) PUBMED 12537568 REFERENCE 11 (bases 1 to 2401) AUTHORS Adams,M.D., Celniker,S.E., Holt,R.A., Evans,C.A., Gocayne,J.D., Amanatides,P.G., Scherer,S.E., Li,P.W., Hoskins,R.A., Galle,R.F., George,R.A., Lewis,S.E., Richards,S., Ashburner,M., Henderson,S.N., Sutton,G.G., Wortman,J.R., Yandell,M.D., Zhang,Q., Chen,L.X., Brandon,R.C., Rogers,Y.H., Blazej,R.G., Champe,M., Pfeiffer,B.D., Wan,K.H., Doyle,C., Baxter,E.G., Helt,G., Nelson,C.R., Gabor,G.L., Abril,J.F., Agbayani,A., An,H.J., Andrews-Pfannkoch,C., Baldwin,D., Ballew,R.M., Basu,A., Baxendale,J., Bayraktaroglu,L., Beasley,E.M., Beeson,K.Y., Benos,P.V., Berman,B.P., Bhandari,D., Bolshakov,S., Borkova,D., Botchan,M.R., Bouck,J., Brokstein,P., Brottier,P., Burtis,K.C., Busam,D.A., Butler,H., Cadieu,E., Center,A., Chandra,I., Cherry,J.M., Cawley,S., Dahlke,C., Davenport,L.B., Davies,P., de Pablos,B., Delcher,A., Deng,Z., Mays,A.D., Dew,I., Dietz,S.M., Dodson,K., Doup,L.E., Downes,M., Dugan-Rocha,S., Dunkov,B.C., Dunn,P., Durbin,K.J., Evangelista,C.C., Ferraz,C., Ferriera,S., Fleischmann,W., Fosler,C., Gabrielian,A.E., Garg,N.S., Gelbart,W.M., Glasser,K., Glodek,A., Gong,F., Gorrell,J.H., Gu,Z., Guan,P., Harris,M., Harris,N.L., Harvey,D., Heiman,T.J., Hernandez,J.R., Houck,J., Hostin,D., Houston,K.A., Howland,T.J., Wei,M.H., Ibegwam,C., Jalali,M., Kalush,F., Karpen,G.H., Ke,Z., Kennison,J.A., Ketchum,K.A., Kimmel,B.E., Kodira,C.D., Kraft,C., Kravitz,S., Kulp,D., Lai,Z., Lasko,P., Lei,Y., Levitsky,A.A., Li,J., Li,Z., Liang,Y., Lin,X., Liu,X., Mattei,B., McIntosh,T.C., McLeod,M.P., McPherson,D., Merkulov,G., Milshina,N.V., Mobarry,C., Morris,J., Moshrefi,A., Mount,S.M., Moy,M., Murphy,B., Murphy,L., Muzny,D.M., Nelson,D.L., Nelson,D.R., Nelson,K.A., Nixon,K., Nusskern,D.R., Pacleb,J.M., Palazzolo,M., Pittman,G.S., Pan,S., Pollard,J., Puri,V., Reese,M.G., Reinert,K., Remington,K., Saunders,R.D., Scheeler,F., Shen,H., Shue,B.C., Siden-Kiamos,I., Simpson,M., Skupski,M.P., Smith,T., Spier,E., Spradling,A.C., Stapleton,M., Strong,R., Sun,E., Svirskas,R., Tector,C., Turner,R., Venter,E., Wang,A.H., Wang,X., Wang,Z.Y., Wassarman,D.A., Weinstock,G.M., Weissenbach,J., Williams,S.M., WoodageT, Worley,K.C., Wu,D., Yang,S., Yao,Q.A., Ye,J., Yeh,R.F., Zaveri,J.S., Zhan,M., Zhang,G., Zhao,Q., Zheng,L., Zheng,X.H., Zhong,F.N., Zhong,W., Zhou,X., Zhu,S., Zhu,X., Smith,H.O., Gibbs,R.A., Myers,E.W., Rubin,G.M. and Venter,J.C. TITLE The genome sequence of Drosophila melanogaster JOURNAL Science 287 (5461), 2185-2195 (2000) PUBMED 10731132 REFERENCE 12 (bases 1 to 2401) AUTHORS Celniker,S., Carlson,J., Wan,K., Pfeiffer,B., Frise,E., George,R., Hoskins,R., Stapleton,M., Pacleb,J., Park,S., Svirskas,R., Smith,E., Yu,C. and Rubin,G. CONSRTM Berkeley Drosophila Genome Project TITLE Drosophila melanogaster release 4 sequence JOURNAL Unpublished REFERENCE 13 (bases 1 to 2401) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (20-DEC-2023) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 14 (bases 1 to 2401) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (13-DEC-2023) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 15 (bases 1 to 2401) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (19-OCT-2022) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 16 (bases 1 to 2401) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (20-APR-2020) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 17 (bases 1 to 2401) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (22-APR-2019) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 18 (bases 1 to 2401) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (24-MAY-2018) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 19 (bases 1 to 2401) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (07-DEC-2016) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 20 (bases 1 to 2401) AUTHORS Celniker,S., Carlson,J., Kennedy,C., Wan,K., Frise,E., Hoskins,R., Park,S., Svirskas,R. and Karpen,G. TITLE Direct Submission JOURNAL Submitted (10-AUG-2006) Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, One #Cyclotron RoadOne Cyclotron Road, MS 64-121, Berkeley, CA 94720, USA REMARK Direct Submission REFERENCE 21 (bases 1 to 2401) AUTHORS Celniker,S., Carlson,J., Wan,K., Frise,E., Hoskins,R., Park,S., Svirskas,R. and Rubin,G. TITLE Direct Submission JOURNAL Submitted (10-AUG-2006) Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, One Cyclotron Road, MS 64-121, Berkeley, CA 94720, USA REMARK Direct Submission REFERENCE 22 (bases 1 to 2401) AUTHORS Smith,C.D., Shu,S., Mungall,C.J. and Karpen,G.H. CONSRTM Drosophila Heterochromatin Genome Project TITLE Direct Submission JOURNAL Submitted (01-AUG-2006) Drosophila Heterochromatin Genome Project, Ernest Orlando Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Mailstop 64-121, Berkeley, CA 94720, USA REFERENCE 23 (bases 1 to 2401) AUTHORS Adams,M.D., Celniker,S.E., Gibbs,R.A., Rubin,G.M. and Venter,C.J. TITLE Direct Submission JOURNAL Submitted (21-MAR-2000) Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA COMMENT REVIEWED REFSEQ: This record has been curated by FlyBase. This record is derived from an annotated genomic sequence (NC_004354). ##Genome-Annotation-Data-START## Annotation Provider :: FlyBase Annotation Status :: Full annotation Annotation Version :: Release 6.54 URL :: http://flybase.org ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..2401 /organism="Drosophila melanogaster" /mol_type="mRNA" /db_xref="taxon:7227" /chromosome="X" /genotype="y[1]; Gr22b[1] Gr22d[1] cn[1] CG33964[R4.2] bw[1] sp[1]; LysC[1] MstProx[1] GstD5[1] Rh6[1]" gene 1..2401 /gene="SmydA-9" /locus_tag="Dmel_CG12119" /gene_synonym="CG12119; Dmel\CG12119; lincRNA.971" /note="SET and MYND domain containing, arthropod-specific, member 9" /map="8D1-8D1" /db_xref="FLYBASE:FBgn0030102" /db_xref="GeneID:31859" CDS 604..2106 /gene="SmydA-9" /locus_tag="Dmel_CG12119" /gene_synonym="CG12119; Dmel\CG12119; lincRNA.971" /note="CG12119 gene product from transcript CG12119-RB; CG12119-PB; SmydA-9-PB" /codon_start=1 /product="SET and MYND domain containing, arthropod-specific, member 9, isoform B" /protein_id="NP_001285040.1" /db_xref="FLYBASE:FBpp0309430" /db_xref="GeneID:31859" /db_xref="FLYBASE:FBgn0030102" /translation="MICPKRTSELLDLHLAPFKDKDPAWEIGVSKIAGRGVVATRSLK RGEIIFRDSPLLIGLAAHEEDSLNACSVCLKMLPDTRFMCRQGCGLPVCSLCAKKKQH KSDCDLFKSWGPNEPDVANSVIIRLLCVARAINLSKEQRDLIYCLQANLDNNHRTEVR NAAKCFKNFPTDKKLIEIMNRTVAVLRTNGFDKTTDRTNDNQEFNYRALYPLFGVVNH DCIPNAYYTFEEKTNNMIVRAAVDIPEGFEVTTTYTKLFTGNIARHLFLKMKKSFTCK CSRCSDPTEKGAFISGLYCRDTNCTGLVVPEITGLPHPNWNCLVCKQKSTHAQMMKSQ DFASGAINAKVNSNSLRTLVQYLNEKSDSFIPSSNYVVIDAKMSVLQRLQQGREDCSE ELAHNTRLRYSRDITQLMDKLGLGDSLLRTHLEELLRREEERRAKRLADEAEKQRKLA ELQAKAAEADKLLEVLQKEQSEQSEQAEPAGTADPGTAPAAPPVATAELA" misc_feature 679..>750 /gene="SmydA-9" /locus_tag="Dmel_CG12119" /gene_synonym="CG12119; Dmel\CG12119; lincRNA.971" /note="SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily; Region: SET; cl40432" /db_xref="CDD:394802" misc_feature <1150..1443 /gene="SmydA-9" /locus_tag="Dmel_CG12119" /gene_synonym="CG12119; Dmel\CG12119; lincRNA.971" /note="SET domain (including SET domain and post-SET domain) found in SET and MYND domain-containing protein, and similar proteins; Region: SET_SMYD; cd20071" /db_xref="CDD:380997" misc_feature order(1168..1173,1213..1215,1243..1257,1360..1362, 1366..1368) /gene="SmydA-9" /locus_tag="Dmel_CG12119" /gene_synonym="CG12119; Dmel\CG12119; lincRNA.971" /note="active site" /db_xref="CDD:380997" misc_feature order(1168..1173,1213..1215,1243..1245,1357..1362, 1366..1368) /gene="SmydA-9" /locus_tag="Dmel_CG12119" /gene_synonym="CG12119; Dmel\CG12119; lincRNA.971" /note="polypeptide substrate binding site [polypeptide binding]; other site" /db_xref="CDD:380997" misc_feature order(1261..1263,1426..1428,1432..1434,1441..1443) /gene="SmydA-9" /locus_tag="Dmel_CG12119" /gene_synonym="CG12119; Dmel\CG12119; lincRNA.971" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:380997" ORIGIN 1 tcaaaacaga caaacagcaa caatgcgctg ttcatcaatc catccgagtg gacaccagga 61 tttctctgat acatgggatt gtctgggctc ctgctcccaa tcccgctgcc atcttttcgc 121 tttgcccctc caatccaata ttcatctttc cgatccgcca acaccgttca agaaatcgga 181 aaatcgcatc gccgtgtggc gaacatcgtg accaccaccg attatcgtga atcttcgtat 241 ggcgttcgtt tctggcgaac tggcgatcgt cgacagcttg ccgaattttc agcttttcgc 301 cgacttttca cataaaaatc atgtaaggct ggaaaacggc gacagtttac tcacggcagt 361 cgcgaaataa acgctgcagg cgaaccaatc cgttcacccg aaagaattca agaccagaaa 421 cttaaccaca gatcggtggc gagattctcg agattaagct aaagagttaa attgttggag 481 ataaaaaaat cggtgatcag aaatcaagaa tcgagagatt cccaccagtg acttaatttt 541 tgttcaagtg ccgctgtaca ttttttgtgt gatctgcgca aagcagcgat ccttgatccc 601 atcatgatct gcccgaaacg cacctcggag ctgttggatc tgcacttggc gccatttaag 661 gacaaggatc cggcctggga gattggcgtc tcgaagatcg ccggacgcgg agtggtggcc 721 acaaggagtc tcaagcgtgg cgagatcatc ttccgcgaca gtccgctgct gattggactg 781 gccgctcacg aggaggactc cctgaatgcg tgcagtgtgt gcctgaagat gctgccggac 841 acgagattca tgtgccgcca gggatgcgga ttgcccgtgt gctccctgtg cgccaaaaag 901 aagcagcaca agagcgactg cgatctgttc aagtcgtggg gaccgaatga gccggatgtg 961 gccaattcgg tgatcattcg gttgctctgc gtcgccaggg ccatcaatct gagcaaggag 1021 cagcgggatc taatctactg cctgcaggcc aatctggata acaatcatcg caccgaggtg 1081 cgcaatgcgg ccaagtgctt caagaacttc cccaccgaca agaagctaat cgagatcatg 1141 aatcgcaccg tcgccgtcct gcggaccaat ggatttgaca agaccacaga tcggacgaac 1201 gacaatcagg agttcaacta tcgggcacta tatccactct ttggcgtcgt caatcacgac 1261 tgcattccca acgcctacta caccttcgag gagaagacca ataatatgat cgttcgcgcc 1321 gctgtcgata tacccgaggg attcgaggtg accaccacct acaccaagct cttcaccggc 1381 aacatcgccc gccatctctt tctcaagatg aagaagagct tcacctgcaa atgctcccgc 1441 tgctccgatc ccacggagaa aggtgccttc atctcgggcc tctactgccg cgatacgaac 1501 tgcacgggtc tggtggtgcc ggagattacc ggattgccgc atcccaactg gaactgtctg 1561 gtttgcaagc aaaagtccac gcatgcgcag atgatgaagt cgcaggactt cgctagcggc 1621 gccatcaatg ccaaggtcaa ttcgaattcg ctgagaacac tggtgcagta tctgaacgag 1681 aagagcgaca gctttatacc cagctccaac tatgtggtca tcgatgccaa gatgtccgtg 1741 ctgcagcggc tccagcaggg acgcgaggac tgctccgagg agttggcgca caatacgcgc 1801 cttcgctaca gccgtgacat tacccagctg atggacaaac tgggtctggg cgacagtctg 1861 ctgcgcaccc acctggagga gctgctgcgg cgcgaggagg agcgacgcgc caagcggctg 1921 gcggatgagg ccgagaagca gcgcaagctg gccgaactgc aggccaaggc cgccgaggct 1981 gacaagttgc tcgaggtcct gcagaaggag cagtcggagc agtcggagca ggccgagcca 2041 gcgggcacag ctgatcctgg cacggctcct gctgcgccgc cggtggccac cgctgagttg 2101 gcttagatag ccgccgtata cagtcatcta tttcaggact cgagtaactg gctgagtgga 2161 tttctgggat ttctcccaaa tggatgttgt tgaatatgca actttgagaa actcaatact 2221 cgactcctga aaatcggacg cgtagttccc caaacagtcc ttttggccac ctctcctagt 2281 tctgtgttgt gcgtactaaa ctaaataatc gtatctgtat ctgtatttgt atttttattt 2341 atttataata aattaaaaac catactcgac gagtgctgct aattcccagc gagagtgtgc 2401 c