LOCUS       pOME0240_consensus      1217 bp    DNA     linear   UNA 
FEATURES             Location/Qualifiers
     misc_RNA        <1..1210
                     /label="K4.7 (T1.5) - Ganem lab 2014"
     misc_RNA        1..1217
                     /note="corresp. pos."
                     /label="K4.7 (T1.5) - Yuan lab 2004"
     misc_RNA        <1..1217
                     /note="5' end approx."
                     /note="corresp. pos."
                     /label="K4.7 (T1.5) - Chang/Moore lab 2011"
     misc_RNA        <1..>1217
                     /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..56
                     /rpt_family="LIR1"
                     /rpt_type=inverted
     source          <1..>1217
                     /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..7
                     /site_type="mutagenized site"
                     /label="5' RE site"
     repeat_region   58..497
                     /note="22 copies"
                     /rpt_family="DR1"
                     /rpt_type=direct
     misc_feature    190..644
                     /feature_type="Low coverage"
                     /Reference position="190..644"
     misc_feature    190..644
                     /note="according to Aubrey"
                     /label="unassemblable repeat region"
     misc_difference 190..644
                     /Reference
                     symbols="CCCCGGCAGCACCCCAGGAGCCCCGGCAGCACCCCAGGAGCCCCGGCAG
                     C...CGCCACCCTCCCCCGGAGGGGGATCCCGGCGCGCCACCCTCCCCCGGAGG"
                     /Reference position="190..644"
                     /label="Reference different than consensus"
     repeat_region   511..665
                     /note="5 copies"
                     /rpt_family="DR2"
                     /rpt_type=direct
     polyA_signal    870..875
                     /label="PAS K4.7(T1.5) - Schifano guess"
     polyA_site      885
                     /note="corresp. pos."
                     /label="TTS K4.7(T1.5) - Zheng lab 2013"
     polyA_site      961
                     /note="not confirmed by 3' RACE, corresp. pos."
                     /label="TTS K4.7(T1.5) - Zheng lab 2013"
     misc_RNA        1131..>1217
                     /note="5' end not determine, est. based on Fig. 2"
                     /label="K4.5 (T6.1, as-K5-K6) - Ganem lab 2014"
     polyA_signal    1190..1195
                     /label="PAS K4.7(T1.5) - Schifano guess"
     polyA_site      1210
                     /note="corresp. pos."
                     /label="TTS K4.7(T1.5) - Zheng lab 2013"
     Site            1211..1217
                     /site_type="mutagenized site"
                     /label="3' RE site"
ORIGIN
        1 GGTACCGCGG CGGCACGTGG GACGGATCTC TTGGATTTAC CCGTAACGAG GAGCGGCGCA
       61 CCCCAGGAGC CCCGGCAGCA CCCCAGGAGC CCCGGCAGCA CCCCAGGAGC CCCGGCAGCA
      121 CCCCAGGAGC CCCGGCAGCA CCCCAGGAGC CCCGGCAGCA CCCCAGGAGC CCCGGCAGCA
      181 CCCCAGGAGN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN
      241 NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN
      301 NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN
      361 NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN
      421 NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN
      481 NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN
      541 NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN
      601 NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNNN NNNNGGGATC CCGGCGCGCC
      661 ACCCTCCCCG GCAACAACCT GTTGCCATGT ATGGCGATTT GTATCAGTCA CAAGCACACA
      721 ACCCCTGCTA GTATTAATGG TGTTTAAAAC GTTCTACACG TACGGCGGAC CGCATCCGTC
      781 GCAAGCACGC GCATATAACC CCCAAATGCA CCATGATGAG AAGCACAGCC ACGCGTCAAA
      841 AAACTTTAAA AACATCGTTA TCCAATATCA TTAAAAACCA CACCGAAATT TACACAGGTA
      901 GCACGTCACC GTGTTAGTGT CACCCACTGT ACACAAGGCG TGTCGTATAT GTAGTATAGG
      961 TATTTGATGA GGCGGAAGCA TATCCCGCTT CCAGCGAACG GAAATAAGAA TCATCCGTTC
     1021 CAGCATTTAT TCAAAGGGGG CACAGAGGAT TCACATTGTT TAGAGAGAGT TTTTCTTAGT
     1081 CACCATTCCA TACTTGGGCA GTATTGGCCT ACGATTTGGG CGACGTTTCA GGCTGGTCTA
     1141 TTCTCCGTCC ACTTTTCCCC GGCTATTCTG TCCCAGCATA GGCTCTTGAA ATAAACAATG
     1201 TTTACCGAGT AG
//
