From: GenBank-Updates@genbank.bio.net
Newsgroups: bionet.molbio.genbank.updates
Subject: Jaagsiekte sheep retrovirus, complete genome.
Date: 31 Jul 92 10:01:41 GMT
Distribution: bionet
Checksum: 07484    14

LOCUS       JSRCG        7462 bp ss-RNA             VRL       31-JUL-1992
DEFINITION  Jaagsiekte sheep retrovirus, complete genome.
ACCESSION   M80216
KEYWORDS    env protein; envelope protein; gag protein; long terminal repeat;
            pol polyprotein; protease.
SOURCE      Jaagsiekte sheep retrovirus cDNA to genomic RNA.
  ORGANISM  Jaagsiekte sheep retrovirus
            Viridae; ss-RNA enveloped viruses; Positive strand RNA virus;
            Retroviridae.
REFERENCE   1  (bases 1 to 7462)
  AUTHORS   York,D.F., Vigne,R., Verwoerd,D.W. and Querat,G.
  TITLE     nulcotied sequence of the jagsiekte retrovirus, an exogenous and
            endogenous type D and B retrovirus of sheep and goats
  JOURNAL   J. Virol. 66, 4930-4939 (1992)
  STANDARD  full staff_entry
FEATURES             Location/Qualifiers
     LTR             14..126
                     /note="5' LTR U5 region"
     CDS             263..2101
                     /product="gag protein"
                     /gene="gag"
                     /codon_start=1
                     /translation="MGHTHSRQLFVHMLSVMLKHRGITVSKTKLINFLSFIEEVCPWF
                     PREGTVNLETWKKVGEQIRTHYTLHGPEKVPVETLSFWTLIRDCLDFDNDELKRLGNL
                     LKQEEDPLHTPDSVPSYDPPPPPPPSLKMHPSDNDDSLSSTDEAELDEEAAKYHQEDW
                     GFLAQEKGALTSKDELVECFKNLTIALQNAGIQLPSNNNTFPSAPPFPPAYTPTVMAG
                     LDPPPGFPPPSKHMSPLQKALRQAQRLGEVVSDFSLAFPVFENNNQRYYESLPFKQLK
                     ELKIACSQYGPTAPFTIAMIESLGTQALPPNDWKQTARACLSGGDYLLWKSEFFEQCA
                     RIADVNRQQGIQTSYEMLIGEGPYQATDTQLNFLPGAYAQISNAARQAWKKLPSSSTK
                     TEDLSKVRQGPDEPYQDFVARLLDTIGKIMSDEKAGMVLAKQLAFENANSACQAALRP
                     YRKKGDLSDFIRICADIGPSYMQGIAMAAALQGKSIKEVLFQQQARNKKGLQKSGNSG
                     CFVCGQPGHRAAVCPQKHQTSVNTPNLCPRCKKGKHWARDCRSKTDVQGNPLPPVSGN
                     WVRGQPLAPKQCYGATLQVPKEPLQTSVEPQEAARDWTSVPPPIQY"
     misc_feature    1923..2862
                     /note="This ORF starts after a stop codon and goes to the
                     next stop codon."
                     /product="protease"
                     /gene="protease"
     misc_feature    2829..5441
                     /note="The ORF described starts after a stop codon and
                     ends at the next stop codon."
                     /product="pol protein"
                     /gene="pol"
     CDS             4606..5106
                     /note="ORF X"
                     /codon_start=1
                     /translation="MQPENPMIYITKIVILYACNLKFPVKLHGKLLNLALLVLNSLFS
                     LNMVSTLEVYALITSGKQMLLTFLNLGVLNMFMFLLTLFPIFSWLPFTLENQHVTVFN
                     ICCFAFLLQESHKPLKQIMDLVILAVLFNVFVFLSKFIIKQEFLIIHRDKVLWNEPIN
                     ELNINY"
     CDS             5350..7197
                     /product="envelope protein"
                     /gene="env"
                     /codon_start=1
                     /translation="MPKRRAGFRKGWYARQRNSLTHQMQRMTLSEPTSELPTQRQIEA
                     LMPYAWNEAHVQPPVTPTNILIMLLLLLQRVQNGAAAAFWAYIPDPPMIQSLGWDREI
                     VPVYVNDTSLLGGKSDIHISPQQANISFYGLTTQYPMCFSYQSQHPHCIQVSADISYP
                     RVTISGIDEKTGKKSYGNGTGPLDIPFCDKHLSIGIGIDTPWTLCRARVASVYNINNA
                     NATFLWDWAPGGTPDFPEYRGQHPPIFSVNTAPIYQTELWKLLAAFGHGNSLYLQPNI
                     SGTKYGDVGVTGFLYPRACVPYPFMLIQGHMEITLSLNIYHLNCSNCILTNCIRGVAK
                     GEQVIIVKQPAFVMLPVEIAEAWYDETALELLQRINTALSRPKRGLSLIILGIVSLIT
                     LIATAVTACVSLAQSIQAAHTVDSLSYNVTKVMGTQEDIDKKIEDRLSALYDVVRVLG
                     EQVQSINFRMKIQCHANYKWICVTKKPYNTSDFPWDKVKKHLQGIWFNTNLSLDLLQL
                     HNEILDIENSPKATLNIADTVDNFLQNLFSNFPSLHSLWKTLIGLGIFVIIIAIVIFV
                     FPCVVRGLVRDFLKMRVEMLHMKYRTMLQHRHLMELLKNKERGAAGDDP"
     LTR             7178..7449
                     /note="3' LTR U3 region"
     TATA_signal     7429..7436
                     /note="putative"
                     /note="putative"
     polyA_signal    7444..7449
                     /note="putative"
                     /note="putative"
BASE COUNT     2126 a   1623 c   1486 g   2227 t
ORIGIN
        1 gcaaggtatc agccgttctg gtctgatcct ctcaacccca tcttttgtct ttctcagttt
       61 cttagcgggg accgtccgtt ctctccctgt gcaggtgcga ctcttgtttg tgctggtcgc
      121 ggcaggtggc gcccaacgtg gggctcgagc tcgacagttt tcttccgcca ctactctcat
      181 taattgaact aagtaagtat atggataaac aagtagccta aattaaggag gagtagtaag
      241 gtatatagtt gagagtataa atatgggaca cacgcatagt cgtcagttgt ttgtgcatat
      301 gttatctgta atgttaaaac atagggggat cactgtttct aaaactaaat taattaattt
      361 tctttcattt attgaggaag tttgcccttg gtttcctagg gaaggcacag tgaatttgga
      421 gacatggaag aaggtgggag agcaaattcg gacgcattat accttacacg gccctgaaaa
      481 ggtccctgtc gagacattat ctttttggac attgattcgt gactgcctgg attttgataa
      541 tgatgaattg aaacgtttag gaaatttgtt aaaacaggaa gaagatcctc tccatacccc
      601 tgattcggta cctagttatg atcctcctcc tcctcctccg ccatctctga aaatgcaccc
      661 ttctgataat gatgattcac tttcatctac agatgaggca gaattagacg aggaagctgc
      721 taagtatcat caagaagatt ggggtttttt agcacaagaa aaaggggcat taacatctaa
      781 agatgaattg gttgagtgct ttaaaaatct tactattgcc ttacagaatg cagggattca
      841 gcttcctagt aataacaata cctttccctc tgctccgcct tttcctcctg cttatactcc
      901 cactgttatg gctggccttg atccccctcc cgggtttcct ccgccgtcta aacatatgtc
      961 tccattgcaa aaggcattaa gacaggcaca acgactcggt gaagttgttt ctgatttctc
     1021 tcttgccttt cctgtcttcg aaaataacaa ccagcgttac tatgaatcac tgccgtttaa
     1081 acaactaaaa gagttaaaga ttgcttgttc gcaatatggt cctaccgctc catttactat
     1141 tgctatgata gaaagtttgg gtactcaagc tttgcccccg aatgactgga aacagaccgc
     1201 tagggcatgt ctctcagggg gagattattt attatggaaa tctgaatttt ttgaacaatg
     1261 tgctcgtata gctgatgtta accgacagca aggtatacag acctcctatg aaatgttgat
     1321 tggcgaaggc ccttatcagg ctactgatac gcagcttaat ttcttacctg gtgcatatgc
     1381 acaaatatcg aatgcggctc gacaggcatg gaaaaaactt cctagctcca gtactaagac
     1441 agaggacctt tcaaaggtcc ggcagggacc tgatgagcct taccaggact tcgtggcacg
     1501 acttttagat actataggta agataatgtc agatgaaaag gctgggatgg tgctggcaaa
     1561 acaattagct tttgaaaacg ctaactctgc ttgtcaagct gctttgagac cttatcgaaa
     1621 aaagggagat ctatctgatt ttattcgcat ttgtgctgat attggaccct cctacatgca
     1681 aggcattgct atggcagcag cattacaagg aaaaagcata aaagaagtac ttttccagca
     1741 gcaagcccgg aacaagaaag gacttcaaaa gtcaggtaat tcgggttgct ttgtttgtgg
     1801 tcagcctggc catcgggctg cagtatgccc tcaaaaacat caaacctctg ttaatacccc
     1861 taatttgtgc ccacgctgta aaaaaggaaa gcattgggca cgagactgcc gttccaagac
     1921 agatgttcaa ggcaatcctt tgcccccggt ttcgggaaac tgggtgaggg gccagcccct
     1981 ggccccgaaa caatgttatg gggcaacact gcaggttcca aaagaaccat tgcagacctc
     2041 tgtcgagcca caagaggcag cgcgggattg gacctctgtg ccacctccta tacagtatta
     2101 acccctgaga tgggagttca aactcttgcc acaggagtgt ttgggccttt acctccaggg
     2161 acagttggat tacttctggg acgcagcagt gcgtctttaa agggaatact tattcaccct
     2221 ggtgttattg actccgatta tacaggagag ataaaaatat tagcctccgc tcctaacaaa
     2281 attattgtaa ttaatgcggg acagcgaata gctcaacttc ttttagttcc attagtcata
     2341 cagggaaaaa caattaacag agaccgtcaa gataaaggtt tcggatcctc tgacgcctat
     2401 tgggtgcaaa atgttactga ggcacggcca gaactcgagc tacgcattaa tgcaaacttt
     2461 ttccgcgggg tactagatac aggggccgat attagtgtca tttctgataa atattggcct
     2521 accacatggc caaaacagat ggctatttcc actctccagg gtattggcca aactaccaat
     2581 ccagaacaga gttcatccct tcttacttgg aaggataaag atggacatac aggccaattt
     2641 aaaccttata ttctgcccta tcttccagtt aatctatggg ggcgtgatat attaagcaaa
     2701 atgggtgttt atttatatag tccttcaccc actgtgacag atttgatgtt agatcagggc
     2761 ttacttccaa atcaaggttt aggtaaacaa catcaaggca tcattttgcc ccttgattta
     2821 aaacctaatc aagatcgaaa aggcttgggg tgttttccct agggacctct gattctcctg
     2881 tgacgcatgc cgatcctatc gattggaaat ctgaggaacc ggtatgggtc gatcagtggc
     2941 ccctaacaca agaaaaactt tctgccgcac aacagctggt gcaggaacag ctgagacttg
     3001 gtcatattga accttctact tctgcttgga attctccaat ttttgttata aaaaagaagt
     3061 ctggtaaatg gaggttgtta caagatctcc gtaaggtaaa tgagacgatg atgcatatgg
     3121 gagccttaca acctgggttg cccactcctt ctgctatacc tgataaatcc tatattattg
     3181 ttatagattt aaaagattgt ttttacacta ttcctcttgc acctcaagat tgcaaaagat
     3241 tcgctttcag tttaccctct gttaatttta aagagcctat gcaacgctat caatggagag
     3301 ttctcccgca aggaatgact aatagcccta cgctgtgcca aaaatttgtt gctacagcaa
     3361 tagctccggt tcgtcaacgt tttccgcagc tatatttagt tcattatatg gatgatatat
     3421 tactagctca tactgacgaa catctattgt atcaagcttt ttcgattcta aaacaacatt
     3481 taagccttaa tggtcttgtt attgctgatg aaaaaattca gactcatttt ccttataatt
     3541 atttgggttt ctccttatat cctcgtgttt ataataccca attggtaaaa ttgcagactg
     3601 accatttaaa aactctaaat gactttcaaa aacttttagg agacattaat tggatacgtc
     3661 cttatttaaa attacccact tataccttgc agccattatt tgacatcctt aaaggtgact
     3721 ctgatcctgc gtcaccccga acgctttctt tagaaggacg aactgcttta caatcaatag
     3781 aagaagctat tagacaacaa cagattactt attgtgatta ccaacgatca tggggtttgt
     3841 atatacttcc taccccccga gcacccacag gggttctcta tcaagataaa cctttgcgat
     3901 ggatatattt gtctgctact ccaactaaac atctgctccc ttactatgaa cttgttgcaa
     3961 aaattatagc aaagggacgt cacgaggcca tccaatattt tggtatggaa ccccccttca
     4021 tttgtgttcc ttatgcttta gaacaacaag attggctttt tcaattttca gataattggt
     4081 ctatagcttt tgcaaattac cccggacaga ttactcatca ttacccttct gataaattgt
     4141 tacaatttgc tagctctcat gcctttattt ttccaaaaat agttcgccga caacctattc
     4201 ccgaagcgac acttatattt acagatggat cttctaatgg aactgcagct ttaatcatta
     4261 accatcaaac ctattacgca caaaccagtt tttcttctgc tcaagttgtc gaattatttg
     4321 cagtccacca agcgttgcta actgtaccta cttccttcaa tttatttaca gacagctcct
     4381 atgtggtcgg tgccttacag atgattgaaa ctgttccaat tatcggcacc acctctcctg
     4441 aagttcttaa cttatttaca ttgattcaac aggttctcca ttgccgccaa cacccctgtt
     4501 tctttggaca tattcgtgca cactccaccc ttcctggtgc cctcgtacaa ggcaatcaca
     4561 ctgcggacgt tcttactaaa caagtgtttt tccaatcagc tattgatgca gcccgaaaat
     4621 cccatgattt acatcaccaa aatagtcatt ctttacgctt gcaatttaaa atttcccgtg
     4681 aagctgcacg gcaaattgtt aaatcttgct ctacttgtcc tcaattcttt gttctccctc
     4741 aatatggtgt caaccctcga ggtttacgcc ctaatcacct ctggcaaaca gatgttactc
     4801 acattcctca atttgggcgt cttaaatatg ttcatgtttc tattgacact ttttccaatt
     4861 ttctcatggc ttcccttcac actggagaat caacacgtca ctgtattcaa catttgctgt
     4921 tttgcttttc tacttcagga atcccacaaa cccttaaaac agataatgga cctggttata
     4981 ctagccgttc ttttcaacgt ttttgtcttt ctttccaaat tcatcataaa acaggaattc
     5041 cttataatcc acagggacaa ggtattgtgg aacgagccca tcaacgaatt aaacatcaat
     5101 tattaaaaca aaaaaagggg aatgaactgt atagcccctc accacataac gccttaaacc
     5161 atgctcttta tgttttaaat tttttaactt tagacacaga aggcaattca gcagcccagc
     5221 gtttttgggg agaacgatcc tcatgcaaaa aaccacttgt gcgatggaag gatccactta
     5281 ccaatctgtg gtatgggcca gaccctgtat taatatgggg acgagggcat gtttgtgttt
     5341 ttccacagga tgccgaagcg ccgcgctgga ttccggaaag gctggtacgc gcggcagagg
     5401 aactccctga cgcatcagat gcaacgcatg accctgagtg agcccacgag tgagctgccc
     5461 acccagaggc aaattgaagc gctaatgccg tacgcctgga atgaggcaca tgtacaaccc
     5521 cccgtgacac ctactaatat actgattatg ttgttgttac tattacagcg ggtacaaaat
     5581 ggggcagctg cggctttttg ggcatatatt cctgatccgc caatgattca atccttagga
     5641 tgggatagag aaattgtacc tgtatatgtt aatgatacga gccttttggg gggtaaatca
     5701 gatattcaca tttcccctca gcaagcaaat atttcttttt atggccttac tactcaatac
     5761 cccatgtgct tttcttatca atcgcagcat ccccattgta tacaggtgtc agccgacata
     5821 tcatatcctc gagtgactat ttcaggcatt gatgaaaaaa cagggaaaaa atcgtatggg
     5881 aacggaactg gacccctcga tattccgttt tgtgacaagc atttaagcat cggcataggc
     5941 atagacactc cgtggacttt atgtcgagcc cgggttgcat cggtgtataa tatcaataat
     6001 gccaatgcca cctttttatg ggactgggca cctggaggaa cacctgattt tcctgagtat
     6061 cgaggacagc atccacctat tttttcggtg aacaccgctc ctatatatca gacggaacta
     6121 tggaaacttt tggctgcctt tggtcatggc aatagcctgt atttacagcc caatattagc
     6181 ggaaccaaat atggtgatgt gggagttaca ggatttttat atccccgagc ttgtgttcct
     6241 tacccattca tgttgataca aggccatatg gaaataacgc tgtcattaaa tatttatcat
     6301 ctaaactgtt ctaattgtat acttactaac tgtattagag gagtagccaa aggagaacaa
     6361 gttatcatag taaaacagcc tgcttttgta atgctgcccg ttgaaatagc tgaagcatgg
     6421 tatgacgaga ctgctttaga attattacaa cgtattaata cggctcttag ccgtcctaag
     6481 agaggcttga gcctaattat cctgggtata gtatctttaa tcaccctaat agctactgct
     6541 gttacggctt gcgtatcttt agcacaatcc attcaagctg cacatacagt ggattcctta
     6601 tcatataatg ttactaaagt aatgggaact caagaggata tagataagaa aatagaagat
     6661 aggttatcag ctctgtatga tgtagttaga gtcctaggag aacaagttca gagcattaat
     6721 tttcgcatga aaatccagtg tcatgctaat tataaatgga tttgtgttac aaaaaagcct
     6781 tataatactt ctgattttcc atgggataaa gtaaaaaaac atttgcaagg aatttggttc
     6841 aatactaatc tatcgttaga tcttttacaa ctacataatg aaattcttga cattgagaat
     6901 tcgccaaagg ctaccttaaa tatagccgat accgtcgata atttcttgca aaatttattt
     6961 tctaatttcc ctagtcttca ttcattgtgg aaaaccctga tcggtctagg aatatttgtg
     7021 ataattattg ctatcgtaat ctttgtattt ccctgtgtcg ttcgtggtct cgttcgtgat
     7081 tttttaaaga tgagagttga aatgctacat atgaaatata gaactatgtt acaacaccga
     7141 catctaatgg agcttttaaa gaataaagag aggggagctg cgggggacga cccgtgaagg
     7201 gttaagtcct gggagctctt tggcaaaagc caaagcctag gacaaatacc taagctccct
     7261 gtcccgccac cctctaggat tcttgaaagc tcttaaggtt cggatgtttg ctgccggcat
     7321 tacttcacag aaatgacggg aaatctgatt atgtaagaat ccggtgattg tgtaaaaatc
     7381 cggtgggtgt agtttgagat gaataaacag gttatgtaat gtactgtata aatatagcaa
     7441 agtaataaag caaggtatca gc
//