ID JN900499; SV 1; circular; genomic DNA; STD; ENV; 4089 BP. XX AC JN900499; XX DT 22-APR-2012 (Rel. 112, Created) DT 31-JUL-2013 (Rel. 117, Last updated, Version 3) XX DE Boiling Springs Lake RNA-DNA hybrid virus clone BSL_RDHV, complete genome. XX KW ENV. XX OS Boiling Springs Lake RNA-DNA hybrid virus OC Viruses; environmental samples. XX RN [1] RC Publication Status: Online-Only RP 1-4089 RX DOI; 10.1186/1745-6150-7-13. RX PUBMED; 22515485. RA Diemer G.S., Stedman K.M.; RT "A novel virus genome discovered in an extreme environment suggests RT recombination between unrelated groups of RNA and DNA viruses"; RL Biol. Direct 7:13-13(2012). XX RN [2] RP 1-4089 RA Diemer G.S., Stedman K.M.; RT ; RL Submitted (25-OCT-2011) to the INSDC. RL Biology and the Center for Life in Extreme Environments, Portland State RL University, P.O. Box 751, Portland, OR 97207-0751, USA XX DR MD5; fe910a72876aba2fe55fe927ca4dbbdb. DR EuropePMC; PMC3372434; 22515485. XX CC ##Assembly-Data-START## CC Assembly Method :: DNASTAR SeqManII v. 6.1 CC Sequencing Technology :: Sanger dideoxy sequencing; 454 CC ##Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..4089 FT /organism="Boiling Springs Lake RNA-DNA hybrid virus" FT /environmental_sample FT /mol_type="genomic DNA" FT /country="USA" FT /isolation_source="Boiling Springs Lake sediment, Lassen FT Volcanic N.P." FT /collection_date="Sep-2009" FT /clone="BSL_RDHV" FT /note="phage metagenomes: GAIR4 and GNX3R" FT /db_xref="taxon:1379788" FT misc_feature 301..1557 FT /note="similar to putative rolling circle replicase; Rep" FT CDS 1606..3234 FT /codon_start=1 FT /transl_table=11 FT /product="putative capsid protein" FT /note="Cap" FT /db_xref="GOA:I0CKB2" FT /db_xref="InterPro:IPR000937" FT /db_xref="UniProtKB/TrEMBL:I0CKB2" FT /protein_id="AFH77559.1" FT /translation="MSKRARHTYFDDAGQPTFDRKKWLARKISIATSKKFPYKDFGTAH FT YQRGTADNIARFGATYKSADAEQKALRKAVGYSGKGLYMGHGGFFSGAKRLWRSIPKPL FT RAIGVGAARQVASHYLGSGAYNNSNNLMVGGAIQDHLSNSIPQMESSGDETGSVRIVHR FT EYVSDVYAPGTQGGSAVAFQNTTYPLNPGLQSTFLFLSQIAQNFDEYEFDQLIWHFRST FT TTDIGNSTTGQCGTIIMSTNYNAASQPFVDKQAMLEYAHSHSCKVTEHMSHGVECDKNK FT IALANTLFTRSNPVVTNQDLKTYDHGLFQLAIANCPSAYNGLPIGELWVEYRVTLRKPK FT LFTSRGLEIDSDIFTVSNNGLVGTTTQDAPLGKNSLGILKGQQNNIGTLVTTDANGVIT FT VLLPASYTGPLKVKLVWATNSTSTAVAAGLMSVVLTGRLAQINDIYTGTAFQGSEPLWY FT AYAPLGSGTLAVAAKFSYFHEFHVYARPAAFGVDNKFTMTFAGAVGTNLGQATLSIEQY FT QAFGVDNVNITAPTFINSSGTVTLP" FT CDS 3242..3658 FT /codon_start=1 FT /transl_table=11 FT /product="ORF-3" FT /db_xref="UniProtKB/TrEMBL:I0CKB3" FT /protein_id="AFH77560.1" FT /translation="MDMTDEDIERILRHTLPPVSHVTNEDILFQPWWDMGKGHAIPDYM FT AKDFNNPFEFYKYFLSKNNKRFLYYLSRTFIKKFSFNKAKRYGRKWSEEGWRKLIDYCD FT YIKNSLSLKKYNITVKERNEIFEKIMEDNGYFLP" FT CDS complement(3655..4080) FT /codon_start=1 FT /transl_table=11 FT /product="ORF-4" FT /db_xref="UniProtKB/TrEMBL:I0CKB4" FT /protein_id="AFH77561.1" FT /translation="MSKRQPFSYRLQSLNYTFARNPPRGVRISKDLLHAMYVTKVNGEQ FT YAWNMNDNDAWPNGICPDSFGNVKIKRALKDLSYDNSPVNPDTPFGRLQTRGLCALFSV FT LFKRMVENLGPDEALSEILNPRVNWLELINFFIYELH" XX SQ Sequence 4089 BP; 1268 A; 672 C; 906 G; 1243 T; 0 other; gtgaccaaaa gttgtagcta agtattacct acaacttttg gtcacttgtg gtcattaaga 60 tttttgggag gtgaagggat ctttagtccc aaagttccca aaaatcttaa gatcactttt 120 tcaccgtgac cattgatttt ccagtgtccg ttaaagatac gtcggaaaaa ggggtgttgt 180 agagtttcct aaaaatcaca agcgcgaaaa aaaatattct gaatttgttg gtagtaaaat 240 tcataattta actaaaatga agaatattgt tgataaagcg attgataagt taacgaagac 300 atgccgagtt cagttcaagc acagaaaagc ggtcgcaaga agcgcaacag agtgcttgga 360 atcgacgatg aggccactga gtccactaac cgttccgcag tcagtacaag gcgagacgtt 420 gttagtagat ctgacggagg aacacccgag ggagagtcta gtgccgattc agatgaagga 480 gataatcaac ctgacggaga gcagcgacga ggaaatgcta gattacgact tcggtcagga 540 ggaacaagag aaccaagatc cagaggatgg tgtattacag ttaacaactg gactgaagag 600 gatgagagac tcctccgagg actctacgac actcaaggag cgacctttgt tgtctggcag 660 agagagatcg gcgagcgagg cacgaagcac ctgcaggtat gtggtttgaa ttgatgtaat 720 ttaattaaat tatttatatc aattcctact aacatacagg cgtatgcgcg attcactaac 780 aaagtcgggt ttaacttttt gcgaacgtat cttggaggac attccgctga tttcagagct 840 catctcgaag ctgcaagagg ttcgcccctc gacaatttta aatattgcac aaaggaagat 900 agtagggata gaagcagcga tacagggcca tttgtgtttg gtgaagaacc taaagggcag 960 ggtcgacgaa gcgacattga aacagctgca aatttggcaa gaacatctgg agacattagc 1020 caaattatcg atcagttccc tgctactttt gtgcgatatg cacgaggact ttctgaattg 1080 tgtactttct actcaaagcc tcgaagattt aaaactatgg tgcattggtt ctatggggcg 1140 accggaactg gaaaatctct tatggcacaa caagaatgcg agcggttact tggcatggac 1200 aatgcggacc catcacgact tgtagaggga ccgatgtctc gaccatatta taaaatgggc 1260 ggtaataaat ggtggaatgg ttatgtaggt caggaatatg ttatcattga tgattatagg 1320 cctgacttat gtactttttc tgaattattg cgtttattgg atagatatcc ttataaggtc 1380 gagacaaagg gaggagtggt ggagttttgc gcgaagcatg tgtatatcac gtgtcctaaa 1440 aatcctaatg atatgtggtg caatcggact ccggaagata ttcaacaatt agttaggaga 1500 attgaagaaa taaaattatt tgataatcac gtatttaata ctttagttat ttcataattt 1560 aaataatacg agatatattt tttatttctt tttatctgtt gttgaatgtc gaaacgagcc 1620 agacatacat attttgatga tgcagggcag cctacttttg atcgcaagaa gtggttggct 1680 cgcaagattt cgattgcgac ttcaaagaaa tttccttata aggattttgg gactgctcac 1740 tatcagcgtg gtactgctga taatattgcg cgttttggtg caacgtacaa gagcgccgat 1800 gcagagcaga aagctcttag gaaagccgta ggatatagtg gcaagggatt atacatgggt 1860 cacggtggat tttttagcgg tgctaagaga ctatggagga gtattcctaa acctttaaga 1920 gccatcggcg ttggagcagc aagacaagtg gcgagtcatt atttaggtag cggagcatat 1980 aataattcaa ataatttaat ggtaggcgga gctattcaag atcatttatc taacagtatt 2040 cctcaaatgg aatcatctgg tgacgagact gggtcagtta gaattgttca tcgtgaatat 2100 gtctctgacg tttatgctcc tggtacacaa ggtggttcag ctgtagcttt tcagaatacg 2160 acttatcctt taaatccagg attacaaagc acgtttttat tcctgtcgca aattgcacag 2220 aattttgacg agtatgaatt tgatcaactt atttggcatt ttagatcgac taccactgat 2280 attggaaaca gtacaactgg acaatgtggt acgattataa tgtctactaa ctataacgct 2340 gcatcgcagc cttttgtaga caaacaagct atgcttgaat atgcccattc acatagttgc 2400 aaagttactg agcatatgag tcatggtgtt gaatgcgaca aaaataaaat tgctttggcc 2460 aatactttgt ttacaagatc taatcctgtt gtaacaaatc aggatttaaa aacatatgat 2520 cacggtttat ttcagttagc gattgcaaat tgtccatcag cttataatgg tttacctatt 2580 ggtgagctgt gggttgagta tcgcgtaact ttaaggaaac cgaaattatt tacatcgcgt 2640 ggtttggaaa ttgacagcga tatatttact gtaagtaata atggtctcgt aggcactaca 2700 acgcaggatg ctccacttgg aaagaatagt cttggtattt tgaagggaca gcaaaataac 2760 ataggtactt tagttactac agatgcaaac ggtgtcatta cagttttatt gccagcttca 2820 tatactggtc ctttgaaagt taaattggtt tgggccacta attctacctc tactgctgtt 2880 gctgctggtt taatgagtgt tgtcttaacc ggaaggttgg ctcagattaa tgatatttac 2940 acaggcacag cttttcaagg tagtgaaccc ctgtggtatg cgtatgcacc tttgggttct 3000 ggtactttag cagtggccgc gaaattttct tactttcatg agtttcatgt atatgcgaga 3060 ccagctgcgt ttggcgttga taacaagttt actatgacat ttgcaggtgc tgtaggaact 3120 aatttaggtc aagcgacatt atcaattgaa cagtatcaag catttggtgt tgacaatgtt 3180 aatataacag cacctacgtt tattaattca agtggaactg tcacgctacc ataatttaaa 3240 tatggatatg acagatgaag atattgagcg tatcttacga catactttac ctcctgtaag 3300 ccatgttaca aatgaggata tattgtttca accatggtgg gatatgggta aaggtcatgc 3360 aatacctgat tatatggcga aagattttaa caatccgttt gaattttata aatatttttt 3420 aagtaaaaac aataaacggt ttttgtatta tttaagtcgc acatttataa aaaaattttc 3480 gtttaataaa gcgaaacggt acggaaggaa gtggagcgag gaaggatgga gaaaattaat 3540 agattattgt gactatatta aaaacagttt atcattaaaa aaatataata taacggttaa 3600 agagcggaat gaaatatttg aaaagataat ggaagataat ggttattttt taccttaatg 3660 taattcgtaa ataaaaaaat taattaattc aagccaatta actcttggat ttaatatttc 3720 agataatgct tcatctggtc ctaaattctc aaccattctt ttaaataaga cagaaaataa 3780 cgcacataaa cctctggttt gcaatcgacc gaagggcgtg tctgggttta ctggtgagtt 3840 atcgtaggac aaatctttaa gtgcccgttt aatttttaca ttaccgaagc tatcagggca 3900 tattccattt ggccaagcgt cattgtcgtt catattccaa gcatattgtt cgccatttac 3960 tttcgttaca tacatagcat gaagtaaatc tttgcttatt cgtacacctc ttggtgggtt 4020 tctagcgaaa gtataattaa gtgattggag tctatacgag aatggttgtc ttttagacat 4080 atttaaatt 4089 //