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LOCUS NR_002097 3460 bp RNA linear INV 26-DEC-2023 (lncRNA:roX1), lncRNA. ACCESSION NR_002097 VERSION NR_002097.1 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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 3460) 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..3460 /organism="Drosophila melanogaster" /mol_type="transcribed RNA" /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..3460 /gene="lncRNA:roX1" /locus_tag="Dmel_CR32777" /gene_synonym="BcDNA:GH10432; chrX:3706836..3706970; CR32777; Dmel\CR32777; EG:EG0002.2; FBgn0019661; lncRNA-roX1; roX; rox-1; rox1; roX1; RoX1" /note="long non-coding RNA on the X 1; alternate names: RNA on the X1; RNAonX; yang; RNA on the X 1; RNA on the X chromosome 1" /map="3F3-3F3" /db_xref="FLYBASE:FBgn0019661" /db_xref="GeneID:3772376" ncRNA 1..3460 /ncRNA_class="lncRNA" /gene="lncRNA:roX1" /locus_tag="Dmel_CR32777" /gene_synonym="BcDNA:GH10432; chrX:3706836..3706970; CR32777; Dmel\CR32777; EG:EG0002.2; FBgn0019661; lncRNA-roX1; roX; rox-1; rox1; roX1; RoX1" /product="long non-coding RNA on the X 1" /note="lncRNA:roX1-RB; Dmel\lncRNA:roX1-RB; CR32777-RB; Dmel\CR32777-RB" /db_xref="FLYBASE:FBtr0070635" /db_xref="GeneID:3772376" /db_xref="FLYBASE:FBgn0019661" ORIGIN 1 ttaatgcgta gtcaccgaag aaaagtgtta gttaccaggg cctgcccttt taaaattaaa 61 tttaaattga aaaaaaaaat caccaaaaaa tcgaaatctc tggcaagatg tagcgtcgaa 121 agaaaattca tcaaacggca ttgccatcat cgtgcagcaa tcccaaagaa gccatttaga 181 atgcaggcat ccaggcaaaa accagaaaac gtgcctgtgg cagctgcact tcgtggcctt 241 gacgagtccg gacaatagaa aaaccctggg aacctaaccc aaatggctta taggggttgg 301 actggactca ggtaggcgaa gtccccgaaa accgaggcta cattcttgcc accgctgcta 361 aatcgatcat cagtctttgg cggcatggct aagtggaaac ttctcgtgaa attagctaga 421 gtgtgtactg ctactgatag ggtgacctaa cgcaacagca acgagatgtg ctccatcggg 481 cagtgataac ttcttggcaa ccccaacctt aaaaattcga cttcaattca atacatgtga 541 ccagataaac acagcttcaa gcgcattact cgctccatag attcattaaa ccttaatgaa 601 cacaagaaac actcaaaaag taagagattc ttcgcctgag ctgcaattct taagggtggc 661 gtcttcgagg catcgaagac gcggctatcc gaagtagcga aagtggtgcg agtggtgcaa 721 cttgtgacac tgccagcgga gtggatgagc cccatataaa ctgaaccttg cagacctaca 781 aagaccctat ggcccataaa gccggacagg gttttcctgt ccgaaaagta atgtaacgaa 841 aacgcttgag atggaaaatt ctggccggaa cgaaagagac aaatgaaccc aaagcgtccg 901 cttgtcgcca cttgcgtttc gagaagacgc gtacgcatac ctctatcgga tgcatgtggc 961 ggtacgcgga tgcgagcgag acaatgatac tgtagacaag gagagacggc tccctctctc 1021 catcactctc tatcgggctg gccaggcgtt tgcatcgcaa gcgggtgagt gagacggcca 1081 tagggcggac tgcaagtccc gaaagagagc ggtaaagcca tataacccct ataagcaata 1141 aacgacgcat cgaaagttgc gtataacggc atgggcatcc ctcggaaagg aaaaagttca 1201 gaccgcactc acgaataccg ctccgctctg gaaagaccgg ccaaatctgt aagaaatgct 1261 cggccaggag cgtagaatcg ccataatgca gtaaacgact gcaaaagcag ctataactca 1321 aacagaagtt gacaaaagca agagctatgc gctctattaa agtcacaata agtgtcatcg 1381 taacgttcac cacttttcac atttcatcaa agtccatttc tggtccgtgc aaagcagtaa 1441 tgtagagatt ctttttcatt tgaaattgtt agttatcact gccctaggaa ctcatcaatt 1501 tttgtgatag tagtgactga agtatttgtt ttgagggaat tagaagccag aagatttagg 1561 agccatgccg ccgcttaagt aagatctaaa agccaagaag ctacacccag aagaaactgc 1621 cactgcatag atttttgaaa tgagcaaaga aatctaaact gaaatggtta tccaccaact 1681 gaaggccatc gaatctatta agttttatcc acgttagcac tgttcaaaat ctcaagctag 1741 gctactaaac gaactattca tcacaaaagc ctcacacaaa atattcattc atgaatcagt 1801 ctagcctatt ttttcttctg ctttaccatt tgaacaagta ctcagaaatc gctcgaaaag 1861 ggacattttg attttgcttt gattttgtgc cttagttttt caactaacca aaatattgct 1921 tacagaaatt aatcagttta ttaactgaaa aagcccttaa attaactgcc aggaggtgag 1981 tttttgtctt cgattcttgg aaaacgttga gtaggggccc aactaaagga aataggccag 2041 acaaagcctg taaaaaaaac ctataaaaat aaaaagttct aaaagaggcc actgtgaaac 2101 tgttatacaa gctggcctaa agttatgcgt agaagaaaac gtataaaagt gaataaatgt 2161 ttgcaaacgg atgtttaaaa catgcgtttt ctaaacgaaa gatgaaaaat aatatcaaaa 2221 agcgaattaa gtgctgttca atcgtttgac cagcagttga tttgcgaatg gctgaaaata 2281 ttcgcttaaa cttatggcaa agcttgttaa aataaaaaat aaaaaatttt aaaagaaata 2341 aaaatatcct tacaccgggc acctacaatg cgtatccacc cgggattcaa gcaaaagcta 2401 ttattctatt ggccttgatt attaacatat ttctatgctg tgtgttcttt cagatgagtt 2461 ttgaacagag acgaaacttg gagcctcgcg gagccaaagt tttaaattga tttttgtttt 2521 taattcccta tattcgagtc gatttcccgc agtcttttca ttaattttct taaacattga 2581 ctggctaatt cttgaacctc agttttcatt caaaagtcat cttttcttcg ttggtccctg 2641 cttgagcttg aaacattgtg ccaagaattt ttttctgttc aattgaacct tttctgtgca 2701 aatgtcctgc agaagaggaa acccattaca gacttgtgct ttctcctgaa tgtgatatgc 2761 aagcaggtgt aacaaagcct atgaaatccg gtccaacccc acatcaggcc atagccaaga 2821 agctccgcct aatacaagag aagattatac taaccagttt gctatctttc agatccgacc 2881 agaagtagat cgtgttctgt gaactaaccc cttcagtgtt cagcacctcg tcaattgttc 2941 ttaattgttc cttttatttt atgttgtgtt ttatctaatt aacttccgtt gtattttacc 3001 cagtcccctt ccttgacttt ctaataattt tccatgtttt gacagatcct tttttgtccc 3061 acccgaataa ccaaccatac tattcttata taaggttcgt gtttcggaaa acgcattaaa 3121 aggcgtaatt ttaaatcgtt ttccgaaatg ggaatcacat ttaaacaata ttttgaactg 3181 cgtaaaacga ataaatggaa cggtattgaa agcctatgca ttcattacgg ttcaagaagt 3241 ataactaaaa aaaaggaatg aaaaaaaaag aaaagaaaaa cacatttact aacaaataaa 3301 aacttgctga tcaacgttct acgcagttct taaaaagatg ttgaaatgaa cacagccaaa 3361 gcaagtaaaa atgtgtggaa acgttatacg aatcttcacc aagtgcccaa actataaaaa 3421 gaaaattgaa atcgttatac gcctgagccg attcacaaag