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LOCUS NP_511124 1887 aa linear INV 26-DEC-2023 ACCESSION NP_511124 VERSION NP_511124.1 DBLINK BioProject: PRJNA164 BioSample: SAMN02803731 DBSOURCE REFSEQ: accession NM_078569.3 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (20-DEC-2023) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 14 (residues 1 to 1887) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (13-DEC-2023) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 15 (residues 1 to 1887) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (19-OCT-2022) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 16 (residues 1 to 1887) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (20-APR-2020) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 17 (residues 1 to 1887) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (22-APR-2019) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 18 (residues 1 to 1887) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (24-MAY-2018) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 19 (residues 1 to 1887) CONSRTM FlyBase TITLE Direct Submission JOURNAL Submitted (07-DEC-2016) FlyBase, Harvard University, Biological Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA REFERENCE 20 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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 (residues 1 to 1887) 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. The reference sequence is identical to AAF48057. ##Genome-Annotation-Data-START## Annotation Provider :: FlyBase Annotation Status :: Full annotation Annotation Version :: Release 6.54 URL :: http://flybase.org ##Genome-Annotation-Data-END## Method: conceptual translation. FEATURES Location/Qualifiers source 1..1887 /organism="Drosophila melanogaster" /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]" Protein 1..1887 /product="RNA polymerase II subunit A" /EC_number="2.7.7.6" /name="CG1554 gene product from transcript CG1554-RA" /note="CG1554-PA; Polr2A-PA; RNA polymeraseII-215 kd subunit; Pol II large subunit CTD; Pol II CTD; RNA Pol II; RNA polymerase II largest subunit; RNA polymerase IIo; polymerase II CTD; RNA-polymerase II; RNA polymerase II large subunit; Ultrabithorax-like; RNA polymerase II 215kD subunit" /calculated_mol_wt=209039 Region 15..868 /region_name="RNAP_II_RPB1_N" /note="Largest subunit (Rpb1) of eukaryotic RNA polymerase II (RNAP II), N-terminal domain; cd02733" /db_xref="CDD:259848" Site order(22,26,29..30,77..79,81,92,242,244,246,251..252,310, 331,334..335,338,345,348,350..357,362..364,376,379..380, 449,451,453,457..458,460..461,472..473,475,478,487..490, 492,494,496,499..500,503,506..507,510..511,516,531..532, 535,672..673,761,766..767,772,775..776,785..786,816..817, 819..821,824..825,828..829,831..833,836..837,839..840, 853..854,857,861) /site_type="other" /note="RPB1 - RPB2 interface [polypeptide binding]" /db_xref="CDD:259848" Site order(22..35,40,79..104,237..256,294..300,303..311, 330..346,348..352) /site_type="other" /note="clamp" /db_xref="CDD:259848" Site order(40..44,75,254,256,262..267,269..271,273..274,277, 281,297,300..301,304..305,314..319,322..327,329,334,339, 410,413,417..420,422..424) /site_type="other" /note="RPB1-TFIIB interface [polypeptide binding]" /db_xref="CDD:259848" Site order(67,70,77,80) /site_type="other" /note="Zn-binding [ion binding]" /db_xref="CDD:259848" Site order(100..101,338,343,350,356,452..454,487,489,491, 850..851) /site_type="active" /note="active site region [active]" /db_xref="CDD:259848" Region 890..1071 /region_name="RNA_pol_Rpb1_6" /note="RNA polymerase Rpb1, domain 6; pfam04992" /db_xref="CDD:461511" Region 1050..1468 /region_name="RNAP_II_Rpb1_C" /note="Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain; cd02584" /db_xref="CDD:132720" Site order(1069..1070,1074,1077,1460,1463..1466,1468) /site_type="other" /note="Rpb1 - Rpb6 interaction site [polypeptide binding]" /db_xref="CDD:132720" Site order(1074..1104,1106..1136,1142..1156,1292,1302..1311, 1313,1318..1379,1382..1401,1403..1417) /site_type="active" /note="cleft [active]" /db_xref="CDD:132720" Site order(1078,1081,1282,1286,1432,1442..1444,1450..1451,1453, 1455,1460) /site_type="other" /note="Rpb1 - Rpb2 interaction site [polypeptide binding]" /db_xref="CDD:132720" Site order(1123,1408,1425..1426,1429) /site_type="DNA binding" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:132720" Site order(1340,1346..1347,1349,1359..1365,1367,1387, 1398..1399,1401) /site_type="other" /note="Rpb1 - Rpb5 interaction site [polypeptide binding]" /db_xref="CDD:132720" Site 1417..1458 /site_type="active" /note="clamp [active]" /db_xref="CDD:132720" Region <1498..1862 /region_name="Herpes_BLLF1" /note="Herpes virus major outer envelope glycoprotein (BLLF1); pfam05109" /db_xref="CDD:282904" Region <1707..1880 /region_name="PTZ00449" /note="104 kDa microneme/rhoptry antigen; Provisional" /db_xref="CDD:185628" CDS 1..1887 /gene="Polr2A" /locus_tag="Dmel_CG1554" /gene_synonym="5; 8WG16; alphaPol IIo[ser2]; CG1554; CTD; DmCTD; Dmel\CG1554; dRpb1; dRPB1; H5; II; IIo; l(1)10Ca; l(1)DC912; l(1)DF912; l(1)G0040; l(1)L5; L5; POL; pol II; Pol II; Pol II CTD; Pol II Ser5p; Pol II Ser5P; Pol II0[ser2]; Pol II0[ser5]; Pol IIa; Pol IIo; Pol IIo[ser2]; Pol IIo[Ser2]; Pol IIo[ser5]; Pol II[ser2]; Pol-II; Pol-IIa; polII; PolII; PolIIa; PolIIo; PolIIo[ser2]; PolIIo[ser5]; Poll II; PolR2A; RNA pol II; RNA Pol II; RNA Pol II CTD; RNA Pol II ser2P; RNA pol IIo; RNA PolI 215; RNA polII; RNA PolII; RNA PolII CTD; RNA-Pol; RNA-PolII; RNAP; RNAP II; RNAP II LS; RNAPII; RNAPII Ser5P; RNAPII0; RNAPII[[0]][ser5]; RNAPoIIII; RNApol; RNApol II; RNApol2; RNApolII; Rpb1; RPB1; RpII; rpII1; RpII215; RPII215; Rpll215; RPO21; Ser5-P Pol II; Ubl" /coded_by="NM_078569.3:361..6024" /db_xref="FLYBASE:FBpp0073387" /db_xref="GeneID:32100" /db_xref="FLYBASE:FBgn0003277" ORIGIN 1 mstptdskap lrqvkrvqfg ilspdeirrm svteggvqfa etmeggrpkl gglmdprqgv 61 idrtsrcqtc agnmtecpgh fghidlakpv fhigfitkti kilrcvcfyc skmlvsphnp 121 kikeivmksr gqprkrlayv ydlckgktic eggedmdltk enqqpdpnkk pghggcghyq 181 psirrtgldl taewkhqned sqekkivvsa ervweilkhi tdeecfilgm dpkyarpdwm 241 ivtvlpvppl avrpavvmfg aaknqddlth klsdiikann elrkneasga aahviqenik 301 mlqfhvatlv dndmpgmpra mqksgkplka ikarlkgkeg rirgnlmgkr vdfsartvit 361 pdpnlridqv gvprsiaqnl tfpelvtpfn idrmqelvrr gnsqypgaky ivrdngerid 421 lrfhpkssdl hlqcgykver hlrdddlvif nrqptlhkms mmghrvkvlp wstfrmnlsc 481 tspynadfdg demnlhvpqs metraeveni hitprqiitp qankpvmgiv qdtltavrkm 541 tkrdvfitre qvmnllmflp twdakmpqpc ilkprplwtg kqifsliipg nvnmirthst 601 hpdeedegpy kwispgdtkv mvehgelimg ilckkslgts agsllhicfl elghdiagrf 661 ygniqtvinn wllfeghsig igdtiadpqt yneiqqaikk akddvinviq kahnmelept 721 pgntlrqtfe nkvnrilnda rdktggsakk slteynnlka mvvsgskgsn inisqviacv 781 gqqnvegkri pygfrkrtlp hfikddygpe srgfvensyl agltpsefyf hamggregli 841 dtavktaetg yiqrrlikam esvmvnydgt vrnsvgqliq lrygedglcg elvefqnmpt 901 vklsnksfek rfkfdwsner lmkkvftddv ikemtdssea iqeleaewdr lvsdrdslrq 961 ifpngeskvv lpcnlqrmiw nvqkifhink rlptdlspir vikgvktlle rcvivtgndr 1021 iskqanenat llfqclirst lctkyvseef rlsteafewl vgeietrfqq aqanpgemvg 1081 alaaqslgep atqmtlntfh fagvssknvt lgvprlkeii niskkpkaps ltvfltggaa 1141 rdaekaknvl crlehttlrk vtantaiyyd pdpqrtvise dqefvnvyye mpdfdptris 1201 pwllrieldr krmtdkkltm eqiaekinvg fgedlncifn ddnadklvlr irimnneenk 1261 fqdedeavdk meddmflrci eanmlsdmtl qgieaigkvy mhlpqtdskk rivitetgef 1321 kaigewllet dgtsmmkvls erdvdpirts sndiceifqv lgieavrksv ekemnavlqf 1381 yglyvnyrhl allcdvmtak ghlmaitrhg inrqdtgalm rcsfeetvdv lmdaaahaet 1441 dpmrgvseni imgqlpkmgt gcfdllldae kcrfgieipn tlgnsmlgga amfigggstp 1501 smtppmtpwa ncntpryfsp pghvsamtpg gpsfspsaas dasgmspsws pahpgsspss 1561 pgpsmspyfp aspsvspsys ptspnytass pggaspnysp sspnysptsp lyaspryast 1621 tpnfnpqstg yspsssgysp tspvysptvq fqsspsfags gsniyspgna yspsssnysp 1681 nspsysptsp syspsspsys ptspcyspts psysptspny tpvtpsyspt spnysaspqy 1741 spaspaysqt gvkysptspt ysppspsydg spgspqytpg spqyspaspk ysptsplysp 1801 sspqhspsnq ysptgstysa tspryspnms iyspsstkys ptsptytpta rnysptspmy 1861 sptapshysp tspayspssp tfeesed