LOCUS       pOME0246_(1262..6153)_consensus_FINAL_(no_upstream)      4892 bp    DNA     linear   UNA 
FEATURES             Location/Qualifiers
     misc_RNA        1..598
                     /label="K4.7 (T1.5) - Ganem lab 2014"
     misc_RNA        1..599
                     /note="5' end approx."
                     /note="corresp. pos."
                     /label="K4.7 (T1.5) - Chang/Moore lab 2011"
     misc_RNA        1..599
                     /note="corresp. pos."
                     /label="K4.7 (T1.5) - Yuan lab 2004"
     misc_RNA        1..4892
                     /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, Ganem
                     lab 2014"
     repeat_region   1..53
                     /note="5 copies"
                     /rpt_family="DR2"
                     /rpt_type=direct
     source          1..4892
                     /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"
     polyA_signal    258..263
                     /label="PAS K4.7(T1.5) - Schifano guess"
     polyA_site      273
                     /note="corresp. pos."
                     /label="TTS K4.7(T1.5) - Zheng lab 2013"
     polyA_site      349
                     /note="not confirmed by 3' RACE, corresp. pos."
                     /label="TTS K4.7(T1.5) - Zheng lab 2013"
     misc_RNA        519..4892
                     /note="5' end not determine, est. based on Fig. 2"
                     /label="K4.5 (T6.1, as-K5-K6) - Ganem lab 2014"
     polyA_signal    578..583
                     /label="PAS K4.7(T1.5) - Schifano guess"
     polyA_site      598
                     /note="corresp. pos."
                     /label="TTS K4.7(T1.5) - Zheng lab 2013"
     polyA_site      complement(695)
                     /note="corresp. pos."
                     /label="TTS K5 - Yamanishi lab 2000"
     polyA_site      complement(702)
                     /note="corresp. pos."
                     /label="TTS K5 - Gao lab 2014"
     polyA_site      complement(704)
                     /note="corresp. pos."
                     /label="TTS K5 - Zheng lab 2013"
     polyA_signal    complement(726..731)
                     /note="corresp. pos."
                     /label="PAS K5 - Gao lab 2014"
     CDS             complement(867..1637)
                     /codon_start=1
                     /product="K5"
                     /protein_id="ACY00410.1"
                     /db_xref="GI:261853488"
                     /translation="MASKDVEEGVEGPICWICREEVGNEGIHPCACTGELDVVHPQCL
                     STWLTVSRNTACQMCRVIYRTRTQWRSRLNLWPEMERQEIFELFLLMSVVVAGLVGVA
                     LCTWTLLVILTAPAGTFSPGAVLGFLCFFGFYQIFIVFAFGGICRVSGTVRALYAANN
                     TRVTVLPYRRPRRPTANEDNIELTVLVGPAGGTDEEPTDESSEGDVASGDKERDGSSG
                     DEPDGGPNDRAGLRGTARTDLCAPTKKPVRKNHPKNNG"
     polyA_site      complement(2046)
                     /note="corresp. pos."
                     /label="TTS K6 - Zheng lab 2013"
     polyA_site      complement(2049)
                     /note="corresp. pos."
                     /label="TTS K6 - Gao lab 2014"
     polyA_signal    complement(2069..2074)
                     /note="corresp. pos."
                     /label="PAS K6 - Gao lab 2014"
     CDS             complement(2291..2578)
                     /codon_start=1
                     /product="K6"
                     /protein_id="ACY00411.1"
                     /db_xref="GI:261853489"
                     /translation="MAPVHVLCCVSVLLATFYLTPTESAGSLVSYTPNSCCYGFQQHP
                     PPVQILKEWYPTSPACPKPGVILLTKRGRQICADPSKNWVRQLMQRLPAIA"
     polyA_signal    complement(3616..3621)
                     /label="PAS K7.3(anti-PAN lncRNA) - Schifano guess"
     misc_RNA        complement(3617..4877)
                     /note="5' end approx."
                     /note="corresp. pos."
                     /label="K7.3 (anti-PAN lncRNA) - Chang/Moore lab 2011"
     CDS             3776..4156
                     /codon_start=1
                     /product="K7"
                     /protein_id="ACY00412.1"
                     /db_xref="GI:261853490"
                     /translation="MGTLEIKGASLSQFSTGTAQSPWLPLHLWILCSLLAFLPLLVFI
                     GAADCGLIASLLAIYPSWLSARFSVLLFPHWPESCSTKNTARSGALHKPAEQKLRFAQ
                     KPCHGNYTVTPCGLLHWIQSPGQL"
     misc_RNA        3815..4892
                     /note="corresp. pos."
                     /label="PAN RNA - Zheng lab 2013"
     misc_RNA        3820..4892
                     /note="from 2014 Arias et al. (Ganem lab) KSHV 2.0"
                     /label="PAN RNA - Ganem lab 2014"
     misc_RNA        3821..4892
                     /note="corresp. pos."
                     /label="PAN RNA - NC_009333 genome annotation"
     polyA_site      4079
                     /note="corresp. pos."
                     /label="TTS K4.5(T6.1)-PAN - Zheng lab 2013"
     polyA_site      4431
                     /note="corresp. pos."
                     /label="TTS K4.5(T6.1)-PAN-K7 - Zheng lab 2013"
     polyA_signal    4873..4878
                     /note="corresp. pos."
                     /label="PAS K4.5-PAN-K7 - Gao lab 2014"
     polyA_site      4892^4893
                     /note="corresp. pos."
                     /label="TTS K4.5(T6.1)-PAN-K7 - Zheng lab 2013"
ORIGIN
        1 GGGGATCCCG GCGCGCCACC CTCCCCCGGA GGGGGATCCC GGCGCGCCAC CCTCCCCGGC
       61 AACAACCTGT TGCCATGTAT GGCGATTTGT ATCAGTCACA AGCACACAAC CCCTGCTAGT
      121 ATTAATGGTG TTTAAAACGT TCTACACGTA CGGCGGACCG CATCCGTCGC AAGCACGCGC
      181 ATATAACCCC CAAATGCACC ATGATGAGAA GCACAGCCAC GCGTCAAAAA ACTTTAAAAA
      241 CATCGTTATC CAATATCATT AAAAACCACA CCGAAATTTA CACAGGTAGC ACGTCACCGT
      301 GTTAGTGTCA CCCACTGTAC ACAAGGCGTG TCGTATATGT AGTATAGGTA TTTGATGAGG
      361 CGGAAGCATA TCCCGCTTCC AGCGAACGGA AATAAGAATC ATCCGTTCCA GCATTTATTC
      421 AAAGGGGGCA CAGAGGATTC ACATTGTTTA GAGAGAGTTT TTCTTAGTCA CCATTCCATA
      481 CTTGGGCAGT ATTGGCCTAC GATTTGGGCG ACGTTTCAGG CTGGTCTATT CTCCGTCCAC
      541 TTTTCCCCGG CTATTCTGTC CCAGCATAGG CTCTTGAAAT AAACAATGTT TACCGAGTAA
      601 AAGGTTCCAC TCACCCTCAT TTGTCGTTGC ACCCATCCCC CCTTTGCTTA ATCACCCGAA
      661 AACTAGAGGA CACGGATGGA AAACATATCG CACGCGGGTT GTTTGAAAGT CAACAGCTAC
      721 TTGTTTTTAA TGAGGACAGA TTTGGGCACA GGCCAGAGGG TAAAGCCCTA CGTGTGCGCG
      781 GGGGGGGTGT ATACGCTGCG AAAACCTGCA CGGTGCATAA CACCCAGGGC GTCACGTCAC
      841 ATATCTCTGT GCACCCAAGT GGTTGTTCAA CCGTTGTTTT TTGGATGATT TTTCCGCACC
      901 GGCTTTTTTG TGGGCGCGCA TAGGTCGGTA CGCGCTGTCC CCCTAAGTCC CGCACGGTCG
      961 TTCGGGCCCC CGTCCGGCTC GTCTCCGGAT GAACCGTCAC GTTCTTTGTC TCCAGAGGCG
     1021 ACGTCTCCTT CAGATGACTC GTCCGTGGGC TCCTCGTCCG TCCCGCCCGC GGGTCCGACA
     1081 AGGACCGTCA ATTCGATGTT ATCTTCGTTC GCGGTTGGCC GGCGCGGCCG TCGGTATGGC
     1141 AGTACGGTCA CCCGGGTGTT ATTTGCCGCG TATAATGCCC TCACAGTGCC ACTTACGCGG
     1201 CATATGCCGC CAAATGCAAA CACAATAAAT ATTTGGTAAA ACCCAAAGAA GCAGAGAAAA
     1261 CCGAGCACGG CCCCGGGGGA GAATGTTCCC GCAGGAGCAG TTAGGATGAC CAGGAGCGTC
     1321 CAGGTGCACA ACGCCACGCC GACAAGCCCA GCCACCACCA CAGACATCAG CAAAAACAGT
     1381 TCAAAAATTT CTTGGCGCTC CATCTCCGGC CACAGGTTAA GGCGACTACG CCACTGCGTG
     1441 CGCGTGCGGT ATATAACGCG ACACATTTGA CAGGCCGTGT TTCGAGACAC TGTTAGCCAA
     1501 GTGCTTAAAC ACTGCGGGTG GACGACATCC AGCTCTCCGG TACAGGCGCA GGGGTGTATG
     1561 CCCTCGTTCC CCACCTCTTC CCTACATATC CAGCAGATGG GTCCCTCTAC ACCCTCTTCT
     1621 ACGTCCTTGG ACGCCATCTC TGCAGCTGGG GTGGAAGTCT GAAAAAGGGA AAGGGGAGGT
     1681 GAGCAGAGTG CCCAGTTAGT CTCCGACCCG CCGTCCGCCC TACTGTCGCT ATCCCGCCTT
     1741 GACAGATGTC TAACATATTC ACGGACGCCA CATGTGTGTC TATTTTCCTA CATCCAGGCT
     1801 TTCCCTGGAA AACTGTCACA ACCCACCCTG CTTTAGCTCT ACATCTGTAT TTTTGTTTAC
     1861 GCACAGGATC AACGCTTCGT GCCCGTCCAC CCCCGCGCTC TCCGCCTGTG TTTGGAGGTT
     1921 TTATGAGTGG TTAGTTCTAG GCAGCTCCGG ACAAGTTGTC CAAAACACGG CGCGCCCCGC
     1981 CCTTCCTTCC CTCCGGATCC GCCCACACCG GACCTATGAA ATAAGGGACA CGCGTCATCA
     2041 CTAGTTATGA GAGAAAAACC ACAACAGCTT TATTGGAAAA CACCTGAGTG GATCCCCCAC
     2101 CCCCCGCGTA CGACAGGCGT TTCTGTGGTG CGCTTCTGGG AAAAACGTTT TTCCCCCATT
     2161 TCTTCCTCGA CAGGTCTTCT AAGGTAGATA AATCCCCCCC CTTTGCGCGT CTCCTAGAAT
     2221 GGCCTAGGCG CACGATGGCG TTGTCGCCTC GAGCAGTTGG GCCGCAGTGA TATCTTCAAC
     2281 TTTCGACCGT CTAAGCTATG GCAGGCAGCC GCTGCATCAG CTGCCTAACC CAGTTTTTGG
     2341 AAGGGTCTGC GCAGATCTGA CGCCCTCGCT TGGTCAGCAA AATAACTCCG GGTTTTGGGC
     2401 ACGCTGGGGA CGTGGGATAC CACTCTTTTA GAATTTGGAC GGGCGGTGGG TGCTGCTGGA
     2461 ACCCGTAGCA GCAGCTATTA GGCGTGTACG ACACGAGTGA CCCCGCGCTT TCTGTGGGCG
     2521 TCAGGTAAAA CGTGGCAAGC AGTACGCTAA CGCAGCATAA AACGTGGACG GGGGCCATCT
     2581 GGAGGTGCCA AGTTCGCAAC AGTCTAAAGA AAACCGTAAA GGCTATTTGG GGTTTCTGTT
     2641 CTGTCAGATG TAACGCCGAG TTCCTTATAT GCTTACCTGA TTCTGGTCTC ACCTGTTTAT
     2701 TTATAGTGGC GTATGCTAAC CGCCAGCTTA CATGCGGGAT AAGTTGGCCT AACTCACCAA
     2761 AAACGGGTTG CAGACAAAAG TGATTGTTGG GGCGCTTACT TAGAAGGTGT GAGGGTTTCT
     2821 AAGAAACCCC GCCAACGCCC GGAAACCGCA TGCGTTCCAG TCGGTGCGGC CTGCGCCGGC
     2881 GTCGCTGTGG CGCCTTTGTG GGCTTTGAGT TCTGTCATTA AGCCAGGTTT CCATTGCCAC
     2941 CCGGGCGAAA ACAAGCCGGG TAGTTTCAGG GGTCATCTGG CGATCAGTGT ACCATATTCC
     3001 CACGACCCAT CAACACCGCT GCTTGAGGCG TGTCTCTGTA TGTGTCACCG GAGACTGCAT
     3061 GTATCGTGCA TATCTGTATT GTGCGCTTGC GCGGAGACAA CATACCGACG ACCAAGTCAG
     3121 GGGTCACCTC CAGTGCACGC CGCTAGGTGG GACCGTGGGC GAGCCGAAAT AATTATATAT
     3181 TTTTTTGGCA CGGTTGTGAG CAACGCCATC GTGAGTTGGT TAATACCCTC TAAACGCATA
     3241 GTCTTTTTTT ATTTGTCAAC CAACCAGTCA ATCACCTGTC ATCGCCGCTC AGAAGCACAC
     3301 GTCTTCGGCC AATGCCGTGT TGGCGGGTTT GACCACGGTT ACTGATAGGT AGACGAGTCC
     3361 GACAATCACA CACGTCCGCC AGCGATTTGC AGCGCAGCTA AAATCGCGTG GCCGGGTTGG
     3421 TAGAAGCAAA TTATCCAATG GTCGTGTTTG GGTTTGTTTT GGGGTTATCT ACATATTATA
     3481 TTCCTTATCC CGACTGGTTG CGGAAGTATT CGCAGCTTGG CTACTCTGCT CGATTACCCC
     3541 GTGAATAACT GGGCGGGGGG TGACCCAACA TAGTGATTCG GTAGATTTGG GGGACTGGAT
     3601 GAACATTAAT GAAAGTTTAT TAATGTTCAT CCGTATTGTG TATATGTAAT TTGGTTTCCA
     3661 TATTTGGTAG GAGTATGGAG TTTTCTTATG GATTATTAAG GGTCAGCTTG AAGGATGATG
     3721 TTAATGACAT AAAGGGGCGT GGCTTCCAAA AATGGGTGGC TAACCTGTCC AAAATATGGG
     3781 AACACTGGAG ATAAAAGGGG CCAGCTTGAG TCAGTTTAGC ACTGGGACTG CCCAGTCACC
     3841 TTGGCTGCCG CTTCACCTAT GGATTTTGTG CTCGCTGCTT GCCTTCTTGC CGCTTCTGGT
     3901 TTTCATTGGT GCCGCCGATT GTGGGTTGAT TGCGTCGCTT TTGGCAATAT ACCCATCCTG
     3961 GCTTTCGGCT AGGTTTTCCG TCCTACTTTT CCCACATTGG CCTGAGAGCT GTAGTACAAA
     4021 AAACACCGCG CGGTCTGGAG CTCTCCATAA GCCCGCAGAA CAAAAGCTGC GATTTGCCCA
     4081 AAAACCTTGC CATGGCAACT ATACAGTCAC CCCTTGCGGG TTATTGCATT GGATTCAATC
     4141 TCCAGGCCAG TTGTAGCCCC CTTTTATGAT ATGCGAGGAT ACTTAACGTG TCTGAATGTG
     4201 GAATATAATG TGAAAGGAAA GCAGCGCCCA CTGGTGTATC AGAACAGTGG TGCACTACCT
     4261 ATCTGCTCAT TCGTTGTTTC GGTTCTGTGT TTGTCTGATT CTTAGATAGT GTTGAGGTAA
     4321 TTCTAGAAAG CGGATTGAGT GTAAATCGGG CCACTTTGCC CTAAATGTGA CAATCTGGAT
     4381 GTGTATCTTA TTGGTGCGTT GTGAAGCATT TTAAAATGCG TTTTAGATTG TATCAGGCTA
     4441 GTGCTGTAAT GGTGTGTTTA TTTTTCCAGT GTAAGCAAGT CGATTTGAAT GACATAGGCG
     4501 ACAAAGTGAG GTGGCATTTG TCAGAAGTTT CAAAGTCGTG TAAGAACATT GGACTAAAGT
     4561 GGTGTGCGGC AGCTGGGAGC GCTCTTTCAA TGTTAATGTT TTAATGTGTA TGTTGTGTTG
     4621 GAAGTTCCAG GCTAATATTT GATGTTTTGC TAGGTTGACT AACGATGTTT TCTTGTAGGT
     4681 GAAAGCGTTG TGTAACAATG ATAACGGTGT TTTGGCTGGG TTTTTCCTTG TTCGCACCGG
     4741 ACACCTCCAG TGACCAGACG GCAAGGTTTT TATCCCAGTG TATATTGGAA AAACATGTTA
     4801 TACTTTTGAC AATTTAACGT GCCTAGAGCT CAAATTAAAC TAATACCATA ACGTAATGCA
     4861 ACTTACAACA TAAATAAAGG TCAATGTTTA AT
//
