ID JH119619; SV 1; linear; genomic DNA; CON; MAM; 1443917 BP. XX AC JH119619; XX PR Project:PRJNA12555; XX DT 11-SEP-2011 (Rel. 110, Created) DT 02-NOV-2011 (Rel. 110, Last updated, Version 2) XX DE Bos taurus chromosome 1 genomic scaffold Chr1.scaffold49, whole genome DE shotgun sequence. XX KW . XX OS Bos taurus (cattle) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Laurasiatheria; Cetartiodactyla; Ruminantia; Pecora; Bovidae; OC Bovinae; Bos. XX RN [1] RP 1-1443917 RX DOI; 10.1126/science.1169588. RX PUBMED; 19390049. RG Bovine Genome Sequencing and Analysis Consortium RA Elsik C.G., Tellam R.L., Worley K.C., Gibbs R.A., Muzny D.M., RA Weinstock G.M., Adelson D.L., Eichler E.E., Elnitski L., Guigo R., RA Hamernik D.L., Kappes S.M., Lewin H.A., Lynn D.J., Nicholas F.W., RA Reymond A., Rijnkels M., Skow L.C., Zdobnov E.M., Schook L., Womack J., RA Alioto T., Antonarakis S.E., Astashyn A., Chapple C.E., Chen H.C., RA Chrast J., Camara F., Ermolaeva O., Henrichsen C.N., Hlavina W., RA Kapustin Y., Kiryutin B., Kitts P., Kokocinski F., Landrum M., Maglott D., RA Pruitt K., Sapojnikov V., Searle S.M., Solovyev V., Souvorov A., Ucla C., RA Wyss C., Anzola J.M., Gerlach D., Elhaik E., Graur D., Reese J.T., RA Edgar R.C., McEwan J.C., Payne G.M., Raison J.M., Junier T., RA Kriventseva E.V., Eyras E., Plass M., Donthu R., Larkin D.M., Reecy J., RA Yang M.Q., Chen L., Cheng Z., Chitko-McKown C.G., Liu G.E., RA Matukumalli L.K., Song J., Zhu B., Bradley D.G., Brinkman F.S., Lau L.P., RA Whiteside M.D., Walker A., Wheeler T.T., Casey T., German J.B., Lemay D.G., RA Maqbool N.J., Molenaar A.J., Seo S., Stothard P., Baldwin C.L., Baxter R., RA Brinkmeyer-Langford C.L., Brown W.C., Childers C.P., Connelley T., RA Ellis S.A., Fritz K., Glass E.J., Herzig C.T., Iivanainen A., Lahmers K.K., RA Bennett A.K., Dickens C.M., Gilbert J.G., Hagen D.E., Salih H., Aerts J., RA Caetano A.R., Dalrymple B., Garcia J.F., Gill C.A., Hiendleder S.G., RA Memili E., Spurlock D., Williams J.L., Alexander L., Brownstein M.J., RA Guan L., Holt R.A., Jones S.J., Marra M.A., Moore R., Moore S.S., RA Roberts A., Taniguchi M., Waterman R.C., Chacko J., Chandrabose M.M., RA Cree A., Dao M.D., Dinh H.H., Gabisi R.A., Hines S., Hume J., RA Jhangiani S.N., Joshi V., Kovar C.L., Lewis L.R., Liu Y.S., Lopez J., RA Morgan M.B., Nguyen N.B., Okwuonu G.O., Ruiz S.J., Santibanez J., RA Wright R.A., Buhay C., Ding Y., Dugan-Rocha S., Herdandez J., Holder M., RA Sabo A., Egan A., Goodell J., Wilczek-Boney K., Fowler G.R., Hitchens M.E., RA Lozado R.J., Moen C., Steffen D., Warren J.T., Zhang J., Chiu R., RA Schein J.E., Durbin K.J., Havlak P., Jiang H., Liu Y., Qin X., Ren Y., RA Shen Y., Song H., Bell S.N., Davis C., Johnson A.J., Lee S., Nazareth L.V., RA Patel B.M., Pu L.L., Vattathil S., Williams R.L.Jr., Curry S., Hamilton C., RA Sodergren E., Wheeler D.A., Barris W., Bennett G.L., Eggen A., Green R.D., RA Harhay G.P., Hobbs M., Jann O., Keele J.W., Kent M.P., Lien S., McKay S.D., RA McWilliam S., Ratnakumar A., Schnabel R.D., Smith T., Snelling W.M., RA Sonstegard T.S., Stone R.T., Sugimoto Y., Takasuga A., Taylor J.F., RA Van Tassell C.P., Macneil M.D., Abatepaulo A.R., Abbey C.A., Ahola V., RA Almeida I.G., Amadio A.F., Anatriello E., Bahadue S.M., Biase F.H., RA Boldt C.R., Carroll J.A., Carvalho W.A., Cervelatti E.P., Chacko E., RA Chapin J.E., Cheng Y., Choi J., Colley A.J., de Campos T.A., De Donato M., RA Santos I.K., de Oliveira C.J., Deobald H., Devinoy E., Donohue K.E., RA Dovc P., Eberlein A., Fitzsimmons C.J., Franzin A.M., Garcia G.R., RA Genini S., Gladney C.J., Grant J.R., Greaser M.L., Green J.A., RA Hadsell D.L., Hakimov H.A., Halgren R., Harrow J.L., Hart E.A., RA Hastings N., Hernandez M., Hu Z.L., Ingham A., Iso-Touru T., Jamis C., RA Jensen K., Kapetis D., Kerr T., Khalil S.S., Khatib H., Kolbehdari D., RA Kumar C.G., Kumar D., Leach R., Lee J.C., Li C., Logan K.M., Malinverni R., RA Marques E., Martin W.F., Martins N.F., Maruyama S.R., Mazza R., RA McLean K.L., Medrano J.F., Moreno B.T., More D.D., Muntean C.T., RA Nandakumar H.P., Nogueira M.F., Olsaker I., Pant S.D., Panzitta F., RA Pastor R.C., Poli M.A., Poslusny N., Rachagani S., Ranganathan S., RA Razpet A., Riggs P.K., Rincon G., Rodriguez-Osorio N., Rodriguez-Zas S.L., RA Romero N.E., Rosenwald A., Sando L., Schmutz S.M., Shen L., Sherman L., RA Southey B.R., Lutzow Y.S., Sweedler J.V., Tammen I., Telugu B.P., RA Urbanski J.M., Utsunomiya Y.T., Verschoor C.P., Waardenberg A.J., Wang Z., RA Ward R., Weikard R., Welsh T.H.Jr., White S.N., Wilming L.G., RA Wunderlich K.R., Yang J., Zhao F.Q.; RT "The genome sequence of taurine cattle: a window to ruminant biology and RT evolution"; RL Science, e1252229 324(5926):522-528(2009). XX RN [2] RP 1-1443917 RG Bovine Genome Sequencing Consortium RA ; RT ; RL Submitted (25-OCT-2011) to the INSDC. RL Human Genome Sequencing Center, Department of Molecular and Human Genetics, RL Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA XX DR MD5; 642d31be04ecbe987430224f0038a2bf. DR ENA; AAFC030000000; SET. DR ENA; AAFC000000000; SET. DR BioSample; SAMN02898106. XX CC This version of the genome has 7x coverage and covers 95% of the CC genome. It was assembled from the pooled reads of BACs and whole CC genome shotgun sequences so is from two cattle (L1 Domino 99375 and CC L1 Dominette 01449). Some of the BACs were sequenced individually CC and some were sequenced using a pooling method. CC Assembly Btau_4.6.1 has an improved version of chromosome Y CC compared to assembly Btau_4.6, which was a reassembly to replace CC some WGS sequences with BAC sequences and to add some WGS sequences CC from the AAFC02000000 version of the WGS project that were not CC included in the current version, AAFC03000000. XX FH Key Location/Qualifiers FH FT source 1..1443917 FT /organism="Bos taurus" FT /chromosome="1" FT /mol_type="genomic DNA" FT /note="breed: Hereford" FT /db_xref="taxon:9913" FT assembly_gap 21872..21921 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 24813..24862 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 102118..102785 FT /estimated_length=668 FT /gap_type="unknown" FT assembly_gap 120952..148070 FT /estimated_length=27119 FT /gap_type="unknown" FT assembly_gap 209821..209874 FT /estimated_length=54 FT /gap_type="unknown" FT assembly_gap 225911..225960 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 245101..245150 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 367921..367970 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 515987..516036 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 523362..523411 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 743882..743931 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 767167..767676 FT /estimated_length=510 FT /gap_type="unknown" FT assembly_gap 789307..789356 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 845364..845413 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 887276..887325 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 943059..943635 FT /estimated_length=577 FT /gap_type="unknown" FT assembly_gap 959583..959632 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 1049548..1049597 FT /estimated_length=50 FT /gap_type="unknown" FT assembly_gap 1158582..1188191 FT /estimated_length=29610 FT /gap_type="unknown" FT assembly_gap 1217622..1218187 FT /estimated_length=566 FT /gap_type="unknown" FT assembly_gap 1302444..1426752 FT /estimated_length=124309 FT /gap_type="unknown" FT assembly_gap 1441103..1441152 FT /estimated_length=50 FT /gap_type="unknown" XX CO join(AAFC03096295.1:1..1073,complement(AAFC02043874.1:8489..19646), CO complement(AAFC03096293.1:1..9640),gap(50),AAFC03096292.1:1..2891,gap(50), CO complement(AAFC03096299.1:1..77255),gap(668), CO complement(AAFC02098328.1:9188..10326),complement(AAFC03096297.1:1..17027), CO gap(27119),AAFC03120471.1:1..25643,complement(AAFC03096298.1:1..36107), CO gap(54),AAFC03121056.1:1..13135,AAFC03096294.1:10771..13671,gap(50), CO complement(AAFC03096296.1:1..16127),AAFC03094759.1:5752..8764,gap(50), CO complement(AAFC03094762.1:1..88844),AAFC03121337.1:9900..34178, CO AAFC03094761.1:16491..26137,gap(50),complement(AAFC03094760.1:21..28258), CO AAFC03033714.1:28017..147794,gap(50),AAFC03033712.1:1..7325,gap(50), CO AAFC03033713.1:1..22696,AAFC03084809.1:22351..165047, CO complement(AAFC03121336.1:1..30800),AAFC03061988.1:1433..25709,gap(50), CO complement(AAFC03061986.1:1..23235),gap(510),AAFC03061985.1:1..21630, CO gap(50),AAFC03061989.1:1..56007,gap(50),AAFC03011519.1:1..21815, CO complement(AAFC03061987.1:1..8227),AAFC03011517.1:4616..16435,gap(50), CO complement(AAFC03011520.1:1..55733),gap(577),AAFC03011518.1:1..15947, CO gap(50),complement(AAFC03121338.1:1..69303),AAFC03050749.1:33599..54210, CO gap(50),AAFC03050750.1:1..102771,complement(AAFC02143130.1:1..6213), CO gap(29610),AAFC03044149.1:1..29430,gap(566), CO complement(AAFC03044147.1:19..3593),AAFC03004071.1:2791..10888, CO complement(AAFC03044148.1:1..13711),AAFC03127314.1:13457..26077, CO AAFC03004073.1:5035..47492,complement(AAFC03127064.1:1..3793),gap(124309), CO complement(AAFC03004070.1:1..14350),gap(50), CO complement(AAFC03004069.1:1..2765)) //