LOCUS pOME0299M 6161 bp DNA linear VRL 27-AUG-2012 DEFINITION Reverse T61 Human herpesvirus 8 strain JSC-1 clone BAC16, complete genome. ACCESSION GQ994935 VERSION GQ994935.1 GI:261853473 KEYWORDS . SOURCE Human herpesvirus 8 (Kaposi's sarcoma-associated herpesvirus) ORGANISM Human herpesvirus 8 Viruses; dsDNA viruses, no RNA stage; Herpesvirales; Herpesviridae; Gammaherpesvirinae; Rhadinovirus. REFERENCE 1 (bases 1 to 138146) AUTHORS Brulois,K.F., Chang,H., Lee,A.S., Ensser,A., Wong,L.Y., Toth,Z., Lee,S.H., Lee,H.R., Myoung,J., Ganem,D., Oh,T.K., Kim,J.F., Gao,S.J. and Jung,J.U. TITLE Construction and manipulation of a new Kaposi's sarcoma-associated herpesvirus Bacterial artificial chromosome clone JOURNAL J. Virol. 86 (18), 9708-9720 (2012) PUBMED 22740391 REFERENCE 2 (bases 1 to 138146) AUTHORS Brulois,K., Lee,A. and Chang,H. TITLE Direct Submission JOURNAL Submitted (21-SEP-2009) Molecular Microbiology and Immunology, University of Southern California, 1450 Biggy Street, Los Angeles, CA 90033, USA FEATURES Location/Qualifiers source <1..>6161 /organism="Human herpesvirus 8" /mol_type="genomic DNA" /strain="JSC-1" /db_xref="taxon:37296" /clone="BAC16" /note="infectious BAC clone harboring full-length KSHV genome; derived from rKSHV.219, KSHV-infected JSC1 primary effusion lymphoma cell line" Site 1..6 /site_type="mutagenized site" /label="5' RE site" misc_RNA 7..1080 /note="corresp. pos." /label="PAN RNA - NC_009333 genome annotation" misc_RNA 7..1081 /note="from 2014 Arias et al. (Ganem lab) KSHV 2.0" /label="PAN RNA - Ganem lab 2014" misc_RNA 7..1086 /note="corresp. pos." /label="PAN RNA - Zheng lab 2013" misc_RNA 7..4382 /note="5' end not determine, est. based on Fig. 2" /label="K4.5 (T6.1, as-K5-K6) - Ganem lab 2014" misc_RNA 7..6155 /note="corresp. to 5' end ID'd by 2005 Taylor et al. (Chang/Moore lab)" /note="corresp. to PAN RNA 3' end ID'd by KSHV 2.0" /note="corresp. pos." /label="K4.5 (T6.1) - Chang/Moore lab 2005/2011, Ganemlab2014" /label="K4.5 (T6.1) - Chang/Moore lab 2005/2011, Ganemlab 2014" polyA_site 8 /note="corresp. pos." /label="TTS K4.5(T6.1)-PAN-K7 - Zheng lab 2013" polyA_signal 23..28 /note="corresp. pos." /label="PAS K4.5-PAN-K7 - Gao lab 2014" misc_RNA complement(24..1284) /note="5' end approx." /note="corresp. pos." /label="K7.3 (anti-PAN lncRNA) - Chang/Moore lab 2011" polyA_site 470 /note="corresp. pos." /label="TTS K4.5(T6.1)-PAN-K7 - Zheng lab 2013" CDS 745..1125 /codon_start=1 /product="K7" /protein_id="ACY00412.1" /db_xref="GI:261853490" /translation="MGTLEIKGASLSQFSTGTAQSPWLPLHLWILCSLLAFLPLLVFI GAADCGLIASLLAIYPSWLSARFSVLLFPHWPESCSTKNTARSGALHKPAEQKLRFAQ KPCHGNYTVTPCGLLHWIQSPGQL" polyA_site 822 /note="corresp. pos." /label="TTS K4.5(T6.1)-PAN - Zheng lab 2013" polyA_signal complement(1280..1285) /label="PAS K7.3(anti-PAN lncRNA) - Schifano guess" CDS complement(2323..2610) /codon_start=1 /product="K6" /protein_id="ACY00411.1" /db_xref="GI:261853489" /translation="MAPVHVLCCVSVLLATFYLTPTESAGSLVSYTPNSCCYGFQQHP PPVQILKEWYPTSPACPKPGVILLTKRGRQICADPSKNWVRQLMQRLPAIA" polyA_signal complement(2827..2832) /note="corresp. pos." /label="PAS K6 - Gao lab 2014" polyA_site complement(2852) /note="corresp. pos." /label="TTS K6 - Gao lab 2014" polyA_site complement(2855) /note="corresp. pos." /label="TTS K6 - Zheng lab 2013" CDS complement(3264..4034) /codon_start=1 /product="K5" /protein_id="ACY00410.1" /db_xref="GI:261853488" /translation="MASKDVEEGVEGPICWICREEVGNEGIHPCACTGELDVVHPQCL STWLTVSRNTACQMCRVIYRTRTQWRSRLNLWPEMERQEIFELFLLMSVVVAGLVGVA LCTWTLLVILTAPAGTFSPGAVLGFLCFFGFYQIFIVFAFGGICRVSGTVRALYAANN TRVTVLPYRRPRRPTANEDNIELTVLVGPAGGTDEEPTDESSEGDVASGDKERDGSSG DEPDGGPNDRAGLRGTARTDLCAPTKKPVRKNHPKNNG" polyA_signal complement(4170..4175) /note="corresp. pos." /label="PAS K5 - Gao lab 2014" polyA_site complement(4197) /note="corresp. pos." /label="TTS K5 - Zheng lab 2013" polyA_site complement(4199) /note="corresp. pos." /label="TTS K5 - Gao lab 2014" polyA_site complement(4206) /note="corresp. pos." /label="TTS K5 - Yamanishi lab 2000" misc_RNA 4302..5605 /note="5' end approx." /note="corresp. pos." /label="K4.7 (T1.5) - Chang/Moore lab 2011" misc_RNA 4302..5506 /note="corresp. pos." /label="K4.7 (T1.5) - Yuan lab 2004" misc_RNA 4303..5522 /label="K4.7 (T1.5) - Ganem lab 2014" polyA_site 4303 /note="corresp. pos." /label="TTS K4.7(T1.5) - Zheng lab 2013" polyA_signal 4318..4323 /label="PAS K4.7(T1.5) - Schifano guess" polyA_site 4552 /note="not confirmed by 3' RACE, corresp. pos." /label="TTS K4.7(T1.5) - Zheng lab 2013" polyA_site 4628 /note="corresp. pos." /label="TTS K4.7(T1.5) - Zheng lab 2013" polyA_signal 4638..4643 /label="PAS K4.7(T1.5) - Schifano guess" repeat_region 4848..5002 /note="5 copies" /rpt_family="DR2" /rpt_type=direct repeat_region 5016..5455 /note="22 copies" /rpt_family="DR1" /rpt_type=direct repeat_region 5457..>6161 /rpt_family="LIR1" /rpt_type=inverted Site 6156..6161 /site_type="mutagenized site" /label="3' RE site" ORIGIN 1 GAATTCCCTA ATTTGTAACT GGAAATAAAT ACAACATTCA ACGTAATGCA ATACCATAAT 61 CAAATTAAAC TCGAGATCCG TGCAATTTAA CAGTTTTCAT ATTGTACAAA AAGGTTATAT 121 GTGACCCTAT TTTTGGAACG GCAGACCAGT GACCTCCACA GGCCACGCTT GTTCCTTTTT 181 GGGTCGGTTT TGTGGCAATA GTAACAATGT GTTGCGAAAG TGGATGTTCT TTTGTAGCAA 241 TCAGTTGGAT CGTTTTGTAG TTTATAATCG GACCTTGAAG GTTGTGTTGT ATGTGTAATT 301 TTGTAATTGT AACTTTCTCG CGAGGGTCGA CGGCGTGTGG TGAAATCAGG TTACAAGAAT 361 GTGCTGAAAC TTTGAAGACT GTTTACGGTG GAGTGAAACA GCGGATACAG TAAGTTTAGC 421 TGAACGAATG TGACCTTTTT ATTTGTGTGG TAATGTCGTG ATCGGACTAT GTTAGATTTT 481 GCGTAAAATT TTACGAAGTG TTGCGTGGTT ATTCTATGTG TAGGTCTAAC AGTGTAAATC 541 CCGTTTCACC GGGCTAAATG TGAGTTAGGC GAAAGATCTT AATGGAGTTG TGATAGATTC 601 TTAGTCTGTT TGTGTCTTGG CTTTGTTGCT TACTCGTCTA TCCATCACGT GGTGACAAGA 661 CTATGTGGTC ACCCGCGACG AAAGGAAAGT GTAATATAAG GTGTAAGTCT GTGCAATTCA 721 TAGGAGCGTA TAGTATTTTC CCCCGATGTT GACCGGACCT CTAACTTAGG TTACGTTATT 781 GGGCGTTCCC CACTGACATA TCAACGGTAC CGTTCCAAAA ACCCGTTTAG CGTCGAAAAC 841 AAGACGCCCG AATACCTCTC GAGGTCTGGC GCGCCACAAA AAACATGATG TCGAGAGTCC 901 GGTTACACCC TTTTCATCCT GCCTTTTGGA TCGGCTTTCG GTCCTACCCA TATAACGGTT 961 TTCGCTGCGT TAGTTGGGTG TTAGCCGCCG TGGTTACTTT TGGTCTTCGC CGTTCTTCCG 1021 TTCGTCGCTC GTGTTTTAGG TATCCACTTC GCCGTCGGTT CCACTGACCC GTCAGGGTCA 1081 CGATTTGACT GAGTTCGACC GGGGAAAATA GAGGTCACAA GGGTATAAAA CCTGTCCAAT 1141 CGGTGGGTAA AAACCTTCGG TGCGGGGAAA TACAGTAATT GTAGTAGGAA GTTCGACTGG 1201 GAATTATTAG GTATTCTTTT GAGGTATGAG GATGGTTTAT ACCTTTGGTT TAATGTATAT 1261 GTGTTATGCC TACTTGTAAT TATTTGAAAG TAATTACAAG TAGGTCAGGG GGTTTAGATG 1321 GCTTAGTGAT ACAACCCAGT GGGGGGCGGG TCAATAAGTG CCCCATTAGC TCGTCTCATC 1381 GGTTCGACGC TTATGAAGGC GTTGGTCAGC CCTATTCCTT ATATTATACA TCTATTGGGG 1441 TTTTGTTTGG GTTTGTGCTG GTAACCTATT AAACGAAGAT GGTTGGGCCG GTGCGCTAAA 1501 ATCGACGCGA CGTTTAGCGA CCGCCTGCAC ACACTAACAG CCTGAGCAGA TGGATAGTCA 1561 TTGGCACCAG TTTGGGCGGT TGTGCCGTAA CCGGCTTCTG CACACGAAGA CTCGCCGCTA 1621 CTGTCCACTA ACTGACCAAC CAACTGTTTA TTTTTTTCTG ATACGCAAAT CTCCCATAAT 1681 TGGTTGAGTG CTACCGCAAC GAGTGTTGGC ACGGTTTTTT TATATATTAA TAAAGCCGAG 1741 CGGGTGCCAG GGTGGATCGC CGCACGTGAC CTCCACTGGG GACTGAACCA GCAGCCATAC 1801 AACAGAGGCG CGTTCGCGTG TTATGTCTAT ACGTGCTATG TACGTCAGAG GCCACTGTGT 1861 ATGTCTCTGT GCGGAGTTCG TCGCCACAAC TACCCAGCAC CCTTATACCA TGTGACTAGC 1921 GGTCTACTGG GGACTTTGAT GGGCCGAACA AAAGCGGGCC CACCGTTACC TTTGGACCGA 1981 ATTACTGTCT TGAGTTTCGG GTGTTTCCGC GGTGTCGCTG CGGCCGCGTC CGGCGTGGCT 2041 GACCTTGCGT ACGCCAAAGG CCCGCAACCG CCCCAAAGAA TCTTTGGGAG TGTGGAAGAT 2101 TCATTCGCGG GGTTGTTAGT GAAAACAGAC GTTGGGCAAA AACCACTCAA TCCGGTTGAA 2161 TAGGGCGTAC ATTCGACCGC CAATCGTATG CGGTGATATT TATTTGTCCA CTCTGGTCTT 2221 AGTCCATTCG TATATTCCTT GAGCCGCAAT GTAGACTGTC TTGTCTTTGG GGTTTATCGG 2281 AAATGCCAAA AGAAATCTGA CAACGCTTGA ACCGTGGAGG TCTACCGGGG GCAGGTGCAA 2341 AATACGACGC AATCGCATGA CGAACGGTGC AAAATGGACT GCGGGTGTCT TTCGCGCCCC 2401 AGTGAGCACA GCATGTGCGG ATTATCGACG ACGATGCCCA AGGTCGTCGT GGGTGGCGGG 2461 CAGGTTTAAG ATTTTCTCAC CATAGGGTGC AGGGGTCGCA CGGGTTTTGG GCCTCAATAA 2521 AACGACTGGT TCGCTCCCGC AGTCTAGACG CGTCTGGGAA GGTTTTTGAC CCAATCCGTC 2581 GACTACGTCG CCGACGGACG GTATCGAATC TGCCAGCTTT CAACTTCTAT AGTGACGCCG 2641 GGTTGACGAG CTCCGCTGTT GCGGTAGCAC GCGGATCCGG TAAGATCCTC TGCGCGTTTC 2701 CCCCCCCTAA ATAGATGGAA TCTTCTGGAC AGCTCCTTCT TTACCCCCTT TTTGCAAAAA 2761 GGGTCTTCGC GTGGTGTCTT TGCGGACAGC ATGCGCCCCC CACCCCCTAG GTGAGTCCAC 2821 AAAAGGTTAT TTCGACAACA CCAAAAAGAG AGTATTGATC ACTACTGCGC ACAGGGAATA 2881 AAGTATCCAG GCCACACCCG CCTAGGCCTC CCTTCCTTCC CGCCCCGCGC GGCACAAAAC 2941 CTGTTGAACA GGCCTCGACG GATCTTGATT GGTGAGTATT TTGGAGGTTT GTGTCCGCCT 3001 CTCGCGCCCC CACCTGCCCG TGCTTCGCAA CTAGGACACG CATTTGTTTT TATGTCTACA 3061 TCTCGATTTC GTCCCACCCA ACACTGTCAA AAGGTCCCTT TCGGACCTAC ATCCTTTTAT 3121 CTGTGTGTAC ACCGCAGGCA CTTATACAAT CTGTAGACAG TTCCGCCCTA TCGCTGTCAT 3181 CCCGCCTGCC GCCCAGCCTC TGATTGACCC GTGAGACGAG TGGAGGGGAA AGGGAAAAAG 3241 TCTGAAGGTG GGGTCGACGT CTCTACCGCA GGTTCCTGCA TCTTCTCCCA CATCTCCCTG 3301 GGTAGACGAC CTATACATCC CTTCTCCACC CCTTGCTCCC GTATGTGGGG ACGCGGACAT 3361 GGCCTCTCGA CCTACAGCAG GTGGGCGTCA CAAATTCGTG AACCGATTGT CACAGAGCTT 3421 TGTGCCGGAC AGTTTACACA GCGCAATATA TGGCGTGCGC GTGCGTCACC GCATCAGCGG 3481 AATTGGACAC CGGCCTCTAC CTCGCGGTTC TTTAAAAACT TGACAAAAAC GACTACAGAC 3541 ACCACCACCG ACCCGAACAG CCGCACCGCA ACACGTGGAC CTGCGAGGAC CAGTAGGATT 3601 GACGAGGACG CCCTTGTAAG AGGGGGCCCC GGCACGAGCC AAAAGAGACG AAGAAACCCA 3661 AAATGGTTTA TAAATAACAC AAACGTAAAC CGCCGTATAC GGCGCATTCA CCGTGACACT 3721 CCCGTAATAT GCGCCGTTTA TTGTGGGCCC ACTGGCATGA CGGTATGGCT GCCGGCGCGG 3781 CCGGTTGGCG CTTGCTTCTA TTGTAGCTTA ACTGCCAGGA ACAGCCTGGG CGCCCGCCCT 3841 GCCTGCTCCT CGGGTGCCTG CTCAGTAGAC TTCCTCTGCA GCGGAGACCT CTGTTTCTTG 3901 CACTGCCAAG TAGGCCTCTG CTCGGCCTGC CCCCGGGCTT GCTGGCACGC CCTGAATCCC 3961 CCTGTCGCGC ATGGCTGGAT ACGCGCGGGT GTTTTTTCGG CCACGCCTTT TTAGTAGGTT 4021 TTTTGTTGCC AACTTGTTGG TGAACCCACG TGTCTCTATA CACTGCACTG CGGGACCCAC 4081 AATACGTGGC ACGTCCAAAA GCGTCGCATA TGTGGGGGGG GCGCGTGTGC ATCCCGAAAT 4141 GGGAGACCGG ACACGGGTTT AGACAGGAGT AATTTTTGTT CATCGACAAC TGAAAGTTTG 4201 TTGGGCGCAC GCTATACAAA AGGTAGGCAC AGGAGATCAA AAGCCCACTA ATTCGTTTCC 4261 CCCCTACCCA CGTTGCTGTT TACTCCCACT CACCTTGGAA AATGAGCCAT TTGTAACAAA 4321 TAAAGTTCTC GGATACGACC CTGTCTTATC GGCCCCTTTT CACCTGCCTC TTATCTGGTC 4381 GGACTTTGCA GCGGGTTTAG CATCCGGTTA TGACGGGTTC ATACCTTACC ACTGATTCTT 4441 TTTGAGAGAG ATTTGTTACA CTTAGGAGAC ACGGGGGAAA CTTATTTACG ACCTTGCCTA 4501 CTAAGAATAA AGGCAAGCGA CCTTCGCCCT ATACGAAGGC GGAGTAGTTT ATGGATATGA 4561 TGTATATGCT GTGCGGAACA CATGTCACCC ACTGTGATTG TGCCACTGCA CGATGGACAC 4621 ATTTAAAGCC ACACCAAAAA TTACTATAAC CTATTGCTAC AAAAATTTCA AAAAACTGCG 4681 CACCGACACG AAGAGTAGTA CCACGTAAAC CCCCAATATA CGCGCACGAA CGCTGCCTAC 4741 GCCAGGCGGC ATGCACATCT TGCAAAATTT GTGGTAATTA TGATCGTCCC CAACACACGA 4801 ACACTGACTA TGTTTAGCGG TATGTACCGT TGTCCAACAA CGGCCCCTCC CACCGCGCGG 4861 CCCTAGGGGG AGGCCCCCTC CCACCGCGCG GCCCTAGGGG GAGGCCCCCT CCCACCGCGC 4921 GGCCCTAGGG GGAGGCCCCC TCCCACCGCG CGGCCCTAGG GGGAGGCCCC CTCCCACCGC 4981 GCGGCCCTAG GGGGAGGCCC CCCCCCCACC CCACGACGGC CCCGAGGACC CCACGACGGC 5041 CCCGAGGACC CCACGACGGC CCCGAGGACC CCAGGACGGC CCCGAGGACC CCACGACGGC 5101 CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC 5161 CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC 5221 CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC 5281 CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC 5341 CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC 5401 CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGACGGC CCCGAGGACC CCACGCGGCG 5461 AGGAGCAATG CCCATTTAGG TTCTCTAGGC AGGGTGCACG GCGGCGCGCG CGTCACGCGC 5521 TCCCCCCGAC GACAGGGAGC AAAAATATCG CAAGGGCCGC TTCCCCACAT TGTCAACCAA 5581 TTGGGCAGAG TTTACCCGCA TTGGCATCCT GTTCGACGGG TACATCCGCA ATCGGTGGGT 5641 ACAAGACCCC GCGCGGTCGC CACCCGCCCC GGGGTAGGAG GGCCGGGGGT AGATGGCTTT 5701 GGTGGGTCTC CGCTCTAAGG TCCGGGCACT GAGTGATCGG GGGGGGGGGG GCGGTGGCTT 5761 GTTGGGGCAC CTGTCCCGGG GATATTAGGA CCGTGGGTAG GTGGCTTTGC TGGATCATCT 5821 TTTTAGGGTT GGGGTACTGA GTAGCCCGGG ATAATATTTC TTATTGGGTC ATCTCACTGG 5881 GTCGACTAAA GGTATTTACC TATATGAAGG CCTTTTGTTT CCTCCCAACT TATGTCAACC 5941 CCCATCAGGC GACCATAAGG GTCGACTCCA ACGGAATAAA CCATTACGAA GGCCTTTATG 6001 GTGGACTCCT GGGGCAACCA AAGATGGAAC AAATTAATAT CTTAACGTCG ACCCATATGG 6061 GTCGACCCAA GTGGGTGGAC CCATATGGAT GACCTAATGG GTCGACCCAT ATGGATGACC 6121 TTATCCCCGA CGCTACTGAG TCGACGCGAT CCTAAGGTAC C //