Sequence of DPV Oryza australiensis RIRE1 virus
Oryza australiensis retrotransposon RIRE1, complete sequence.
ACC No: D85597
Dated: 2002-03-01 | Length: 8322 | CRC: -541569150
!!NA_SEQUENCE 1.0
ID D85597 standard; genomic DNA; PLN; 8322 BP.
XX
AC D85597;
XX
SV D85597.1
XX
DT 21-SEP-1997 (Rel. 52, Created)
DT 01-MAR-2002 (Rel. 70, Last updated, Version 3)
XX
DE Oryza australiensis retrotransposon RIRE1, complete sequence.
XX
KW aspartic proteinase; gag protein; integrase; polyprotein;
KW reverse transcriptase; RNase H.
XX
OS Oryza australiensis
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; Ehrhartoideae;
OC Oryzeae; Oryza.
XX
RN [1]
RP 1-8322
RA Ohtsubo E.;
RT ;
RL Submitted (27-MAY-1996) to the EMBL/GenBank/DDBJ databases.
RL Eiichi Ohtsubo, Institute of Molecular and Cellular Biosciences,
RL Univ.Tokyo; Yayoi 1-1-1, Bunkyo-ku, Tokyo 113, Japan
RL (E-mail:eohtsubo@ims.u-tokyo.ac.jp, Tel:03-5684-3269, Fax:03-5684-3269)
XX
RN [2]
RX DOI; 10.1266/ggs.72.131.
RX MEDLINE; 97480925.
RX PUBMED; 9339541.
RA Noma K., Nakajima R., Ohtsubo H., Ohtsubo E.;
RT "RIRE1, a retrotransposon from wild rice Oryza australiensis";
RL Genes Genet. Syst. 72(3):131-140(1997).
XX
FH Key Location/Qualifiers
FH
FT source 1. .8322
FT /db_xref="taxon:4532"
FT /mol_type="genomic DNA"
FT /organism="Oryza australiensis"
FT /clone_lib="The pCRII vector was used for the genomic
FT library."
FT /strain="W1538"
FT repeat_region 1. .8322
FT /transposon="retrotransposon RIRE1"
FT LTR 1. .1523
FT /note="5' LTR"
FT CAAT_signal 1053. .1057
FT TATA_signal 1079. .1083
FT misc_signal 1334. .1337
FT /note="termination signal"
FT primer_bind 1525. .1542
FT /note="complementary to 3' end of initiator methionyl tRNA"
FT /note="putative (-)-strand primer binding site"
FT CDS 2826. .6779
FT /codon_start=1
FT /db_xref="GOA:O23864"
FT /db_xref="InterPro:IPR001584"
FT /db_xref="InterPro:IPR001878"
FT /db_xref="UniProt/TrEMBL:O23864"
FT /product="polyprotein"
FT /protein_id="BAA22288.1"
FT /translation="MAANTTPSTFNLRSILEKEKLNGTNFMDWYRNLRIVLKQERKEYV
FT LEVPYPEELPNNATATARRGFEKHTNDALDISCLMLATMSPELQKQYESSDAHTTIQGL
FT RGMFENQARDERFNTSKSLFACRLVEGNPVSPHVIKMIGYIESLEKLGFPLSQELATDV
FT ILQSLPPSFEPFILNYHMNNMDRTLAELHGMLKTVEESIQKNGHHVMMMQNAKRKPPVK
FT KLCTKRKLTPDEIASASNAKKGKKGSAASDAVCFYCKETGHWKRNCKKYMEDLKKKQST
FT TSASGINVIDINLATSPTDSWVFDTGSVAHSCKSLQGMRRSRGLRRGEVNLRVGNGASV
FT ATVAVGTVPLHLPSGLVLELNNCYCVPTLCQNVISASCLQAEGYDFRSMNNGCSIYLRD
FT MFYFHAPLVNGLYVLNLEASPIYNINTERQLSNDINPTFIWHCRLGHINKKRMEKLHKD
FT GLLHSFDFESFETCESCLLGKMTKAPFTGHSERASDLLALVHTDVCGPMSSTARGGYQY
FT FITFTDDFSRYGYIYLMRHKSESFEKFKEFQNEVQNHLGKTIKFLRSDRGGEYVSQEFG
FT NHLKDCGIVPQLTPPGTPQWNGVSERRNRTLLDMVRSMMSQSDLPLSFWGYALETAALT
FT LNRVPSKSVEKTPYEIWTGQPPSLSFLKIWGCEAYVKRLQSDKLTPKSDKCFVVGYPKE
FT TKGYYFYNREQAKVFVARHGVFLEKEFLSRRVSGIRVHLEEVQETPETVSATTEPQQED
FT QSVAPPVVDTPAPRRSERSRRAPDRYTGAEQRDILLLDNDEPKTYEEAMVGHDSNKWLG
FT AMKSEIESMYDNQVWNLVDPPDGVKTIECKWLFKKKADMDGNVHIYKARLVAKGFKQIQ
FT GVDYDETFSPVAMLKSIRIILAIAAYFDYEIWQMDVKTAFLNGNLSEDVYMIQPQGFVD
FT PESPGKICKLQKSIYGLKQASRSWNIRFDEVIKGFGFIKNEEEACVYKKVSGSAIVFLI
FT LYVDDILLIGNDIPMLESVKSSLKNSFSMKDLGEAAYILGIRIYRDRSKRLIGLSQSTY
FT IDKVLKRFNMHDSKKGFLPMSHGINLSKNQCPQTHDERNKMGMVPYASAIGSIMYAMLC
FT TRPDVSYALSATSRYQSDPGEGHWTAVKNILKYLRRTKDMFLVYGGEEDLVVSGYTDAS
FT FQTDKDDYRSQSGFVFCLNGGAVSWKSSKQDTVADSTTEAEYIAASEAAKEAVWIKKFV
FT SELGVMTSTTGPMSLYCDNSGAIAQAKEPRSHQKSKHILRRYHLIREIVDRGDVKICKV
FT HTDLNIADPLTKPLPQPKHEAHTRAMGIRYLHD"
FT mat_peptide 2826. .3674
FT /note="putative"
FT /gene="gag"
FT /product="gag protein"
FT misc_feature 3588. .3629
FT /note="RNA binding motif"
FT mat_peptide 3675. .4121
FT /note="putative"
FT /gene="pro"
FT /product="aspartic proteinase"
FT misc_feature 3738. .3746
FT /note="protease motif"
FT mat_peptide 4122. .5021
FT /note="putative"
FT /gene="int"
FT /product="integrase"
FT misc_feature 4146. .4251
FT /note="zinc finger motif"
FT misc_feature 4329. .4628
FT /note="integrase motif"
FT mat_peptide 5022. .6287
FT /note="putative"
FT /gene="rt"
FT /product="reverse transcriptase"
FT misc_feature 5796. .5807
FT /note="reverse transcriptase motif"
FT mat_peptide 6288. .6776
FT /note="putative"
FT /gene="rh"
FT /product="RNase H"
FT misc_feature 6315. .6701
FT /note="RNase H motif"
FT primer_bind 6789. .6798
FT /note="polypurine tract as putative (+)-strand priming
FT site"
FT /note="putatie (+)-strand primer binding site"
FT LTR 6800. .8322
FT /note="3' LTR"
XX
SQ Sequence 8322 BP; 2323 A; 1638 C; 2072 G; 2289 T; 0 other;
D85597 Length: 8322 May 9, 2005 17:26 Type: N Check: 5781 ..
1 tgttagtgat atgccctaga ggcaacatgg agatgttgga tatcacgtca
51 atgtttatgt ataaatgaat aaagtgttat tcagttccat gaaatagaca
101 tcttgtattg atcaataagt acgtgactta tttatgagac tctatatgta
151 tgaatctatt tctaaacgat ccctgatcat atgtcatatt gttggaacaa
201 atatgattct aagatcggca tgtttattga ttgatgatca tgtctcatag
251 atcatgggta tggagatacc aaatcaataa acatggacat atgtgttaga
301 gaacacattg ttggatagac ccaccatgag acactacagg aattaatgtg
351 ccattagttg gtctcaggta gtgttggtac aaagtcctta gacctgagat
401 caccatggat tccaacatgt gtagtagcct actttgggac taccaaacgc
451 tattccgtaa ctgggtagtt ataaaggtag ttttcgggtt tgctatgaaa
501 catggagtgg gatgtgagtg atcaagatgg aatttgcccc tcctttggag
551 agatatctct gggcccctcg aggtaatgga ttatggaaat gcatggccat
601 gctaagttga ttgaggagtc aatcaacaga cagataatcc aatacggatc
651 gagtgaatgg ttaagctatt gaagggatgg cacacatctt gcctatagct
701 taactggtat cgtgaggcaa agggatttgt gtacacatta caggttcaga
751 gccgatatta tattcttgta tactatggtg tcaatatgtg ctgctaggcg
801 ccgctgttga caggtcggct gagttggact cgagccgacg atcggctaag
851 ttagactata gccgaaaccg agtatacctg aacctacagg gtcgcacgct
901 taaggggata agaacaggca ttcgagttgg actcggatac ggctcgatcg
951 gatagggatc cgatcggata gagtcctatg ggcttacgac gtatgggcgg
1001 ccaactctat gagatacgga tgagatccga ttcaaaatag agtcctgatc
1051 ggccactagt cccagtcggc caactctata taaaggaggg aggggtggag
1101 agctgcggta cgtcaattgc atcgcgtgca acagaagtcg ccgagatcaa
1151 tctccacgga aaccctcccc actttcgagc caaaccctag ccttgcatcg
1201 cgtgctagca cacgggtgtt cggcgttctg tccccggacg tgtggatacc
1251 ggtagaggcg ctgctacgtt gcacgctgtt gatcggctgc ggatcggcta
1301 cgacatccgc gaatcggctg attggtgaat cggttgtccc cgggtatcgg
1351 ctgtcggctt gcgggaatcg gctacactgt tccggatcgg atagccctga
1401 ttggctattt ccgctgcata ctccaatcgg taacgatcta tcggccctta
1451 cttgcaagtg ttcctggttt gcgcggtaaa aagtttttgt tttcggctag
1501 cgtagcttcc gcgtaaccct tcagtggtat cagagctaat cttgcttagt
1551 tcgggtttta gattggatct ggaacaagtt ttgcgcacgg gttgattaga
1601 tcaatcggtt ttacgggatt tgttgaggag agttgatggt aattgcgttc
1651 cttgatagtg tatcggaacg acgtaatgtg attacgtcga agcaatatcc
1701 atataactcg gtttgagttg ggttcgagat agcgttcctt gatagtgtat
1751 cggaacggta ttatgtgatt ataccgaagc tatctcgtag tccgactttg
1801 tttgctgcct cgcgcctacg caaaccatct cccttgatag tgtatcggga
1851 cggcataata tgattatgcc gatatggttt ccgtaagcga tttcatagat
1901 tggatctatg aattcgtgtg gtgttacggg cgccatgtgc gtaccccctt
1951 ataggtcgtc tcggtgcccg atctctgcga taggtagaaa acgtttctac
2001 gcctaacttg tttttgcaga caatgcctgc agatggtatg gccctattgt
2051 atgtatgaga tgcatgtgat gcatgtaata ttctttcata tgtgcaatcc
2101 ctgtaatatt ctttcatacg tgcaatgctt gtaatattcg ttcacgacct
2151 gcgagtcgat gtaatcttca attagagctt ctatagtagt agcttagttt
2201 gaagaaatca agcattcggc actcggaaga acggtgatga agatggagat
2251 cctctacacc ggcatggaga tggagatcac catgtgaagg gggccatact
2301 atttcactat atgctattct acttgctttc atatatgtga tatgtttgtt
2351 tgataggata gcatccctcg caaaattaag tagtaatgat gcccttccaa
2401 atgttgcacc cgtcaccgtt atgctcgtca atggtgggtc tgccaaagca
2451 gagtgccatt ctctatcata acacgagggg gtatatgtca gacatataca
2501 tgcaggagca tttggtttac ttaacaaggc tatcaaaaca gttttgggcc
2551 ttggggcata ggttggggcc ggggcatgga gatgccacac caacaacaag
2601 agtcacatag agatgtgatt agcaaggtgt tgcttaccga tgttattaat
2651 cttctagcag tgatgccaaa gctcactaga aaattagtta acatgtggat
2701 cttgacccag tacgtaacct agagggaagg tgcaaaatac gtaatgggag
2751 tcttatgtta aattgtttaa gaatagacat agcatgaacg ttgtgctaaa
2801 ctttgctttt tctgttgtag aataaatggc ggctaatact acacccagta
2851 cctttaattt gcgatctatt ctcgaaaagg aaaaattgaa tggaacaaac
2901 tttatggatt ggtatcgcaa cttgagaatt gttctcaagc aagagcgtaa
2951 ggagtacgtt cttgaagtac cctatcctga ggagttgcct aataatgcca
3001 ctgctactgc acggaggggt ttcgagaagc acactaatga tgccctagat
3051 ataagctgtc tcatgctagc tacaatgtcc cctgagcttc agaagcaata
3101 tgagagcagc gatgctcaca ctactattca gggactgcgt ggtatgtttg
3151 agaaccaagc tcgggacgag aggttcaaca cctcaaagtc cttgtttgcg
3201 tgcaggcttg ttgaggggaa tcccgtcagt ccgcatgtga taaagatgat
3251 tggctatatt gagagtctgg aaaaactagg ttttcccctt agccaagagt
3301 tggctactga tgtgattctc cagtcgctcc ctccgagctt cgagccattc
3351 atattaaact atcacatgaa caatatggat agaaccttgg ctgaattaca
3401 tgggatgcta aagacagttg aggagagtat ccagaaaaat ggtcatcatg
3451 tgatgatgat gcagaatgct aagcgcaaac cacctgtcaa gaaactttgc
3501 accaagagga agttaactcc cgatgagatc gcgagtgcct ctaatgcaaa
3551 gaagggcaag aaggggtcgg cggcatcaga tgccgtttgc ttctattgca
3601 aggagacagg ccactggaag aggaactgca agaagtacat ggaggatctc
3651 aaaaagaagc aaagtacgac ttctgcttca ggtattaatg ttatagacat
3701 taatcttgct acttcaccta ctgactcttg ggtatttgat accggatcag
3751 tagctcatag ttgcaaatcg ttgcagggaa tgagaagaag tagaggattg
3801 agaaggggcg aggtgaacct gcgcgtcggc aatggagcaa gcgttgctac
3851 agttgctgtc ggcacagtac cacttcatct accttcagga ttagttttgg
3901 aattgaataa ttgttattgt gttccaacac tatgtcaaaa cgttatttcc
3951 gcttcatgtt tgcaagcgga aggatatgat tttagatcaa tgaacaatgg
4001 ttgttcaata tatctcagag atatgttcta ttttcatgct ccattggtga
4051 atggattata cgttttgaat cttgaagcgt ctcccatcta taacattaat
4101 acagaaaggc aactctctaa tgatataaac cccacattta tctggcattg
4151 tcgcttaggc catataaata agaaacgcat ggagaagctc cataaggatg
4201 gattgcttca ctcttttgat tttgaatcat ttgagacatg tgagtcttgt
4251 ttacttggta agatgacaaa ggcacctttc acgggacata gtgagagagc
4301 aagtgactta ttggcactcg tacatactga tgtatgtgga ccaatgagct
4351 caacggccag aggtggttat caatacttca ttacctttac cgatgacttt
4401 agtagatatg gctatatcta cttaatgagg cataagtccg aatcctttga
4451 aaagttcaaa gaattccaga atgaagtaca gaatcattta gggaaaacaa
4501 tcaagtttct acgatcagat cgtggagggg aatacgtgag ccaagagttt
4551 ggtaatcatc tgaaagattg tggaattgtt ccacagttga ctccgccagg
4601 aactccacaa tggaacggag tgtccgaacg gagaaatcgc accttgttgg
4651 acatggtgcg gtcgatgatg agccaaagtg atcttccgtt atccttctgg
4701 ggatatgctc ttgaaacagc tgcgctcaca ctaaatagag ttccatctaa
4751 gtcagttgaa aagacaccat atgagatatg gacagggcaa ccccctagtt
4801 tgtcttttct caaaatttgg ggatgtgagg cttatgtaaa acgtttacaa
4851 tctgacaagc tcacacccaa atctgacaag tgcttcgttg tgggatatcc
4901 taaggaaact aagggatatt acttttataa tcgggaacaa gccaaagtgt
4951 ttgtcgcccg acatggtgtc ttcttggaga aagagtttct ttcaagaagg
5001 gttagtggga tcagggtgca tcttgaagaa gttcaagaaa caccagaaac
5051 cgtttcagcg accacagaac cacaacagga ggaccaaagt gttgcgccac
5101 cagttgtaga tacaccagcc ccacgaaggt ctgaaagatc acgtcgtgcg
5151 cctgacaggt acacaggtgc ggaacaacgt gatatattgt tgttggacaa
5201 cgatgaacct aagacctatg aggaagcgat ggtgggacac gattccaaca
5251 agtggcttgg agccatgaaa tccgaaatag aatccatgta cgacaatcaa
5301 gtttggaact tggttgatcc acctgatggt gtcaaaacca tcgagtgtaa
5351 atggcttttt aagaaaaagg ccgatatgga tggaaatgtt cacatctata
5401 aggcgcgatt ggtggcgaaa ggttttaaac agattcaagg agttgattat
5451 gatgaaacct tctcgcccgt cgcaatgctt aaatctattc ggattatcct
5501 agcgattgct gcatatttcg attatgagat atggcagatg gatgtcaaaa
5551 cggctttcct aaatggaaac ctaagcgagg atgtatacat gatacaacct
5601 cagggttttg tcgatccaga atcgcctgga aagatatgca agctacagaa
5651 atccatttat ggattgaagc aagcatctcg gagttggaat attcgttttg
5701 atgaagtaat caaagggttt ggtttcatca aaaacgaaga agaggcctgt
5751 gtttacaaaa aggtcagtgg gagcgcaatt gtatttctaa tcttatatgt
5801 ggatgacata ttactgattg gaaatgatat ccctatgcta gaatccgtca
5851 agtcttcatt gaaaaatagt ttttccatga aagacttagg ggaggcagca
5901 tacatattgg gcattcggat ctatagagat agatccaaga ggctaattgg
5951 attaagccaa agtacataca ttgacaaggt gttgaaaagg ttcaacatgc
6001 atgattccaa gaaaggtttc ttgcccatgt cacatggcat taatcttagc
6051 aagaatcagt gccctcagac acatgatgag cggaataaga tgggtatggt
6101 tccatatgct tcggcaattg gatccatcat gtatgccatg ctttgtacac
6151 gcccagatgt ctcgtacgct ttgagtgcta cgagcagata ccagtcagat
6201 ccaggtgaag gtcactggac tgccgtaaag aatatcctta agtacttgag
6251 aagaactaag gatatgttcc tagtctatgg aggtgaagaa gatctcgttg
6301 taagtggtta caccgatgct agcttccaaa cagacaagga tgattataga
6351 tcgcaatctg ggttcgtgtt ctgcctgaac ggaggcgcag tcagctggaa
6401 gagttccaag caggatactg ttgctgattc tacaacggag gccgagtaca
6451 ttgctgcttc ggaagctgca aaggaggctg tttggatcaa gaaattcgtt
6501 tctgagcttg gtgtgatgac tagtacgact ggtccaatgt ctctctattg
6551 tgataatagt ggagccattg cgcaagccaa ggagccgagg tcacatcaga
6601 agtccaaaca catacttcgg cgatatcatc tcatccgcga gatagtggac
6651 agaggtgatg tcaagatatg caaagtgcac acggatctca acatagccga
6701 tccgctgaca aaacctctcc ctcagccgaa gcatgaggcg cacacaagag
6751 caatgggtat tagatactta catgattgac tctagtgcaa gtgggagatt
6801 gttagtgata tgccctagag gcaacatgga gatgttggat atcacgtcaa
6851 tgtttatgta taaatgaata aagtgttatt cagttccatg aaatagacat
6901 cttgtattga tcaataagta cgtgacttat ttatgagact ctatatgtat
6951 gaatctattt ctaaacgatc cctgatcata tgtcatattg ttggaacaaa
7001 tatgattcta agatcggcat gtttattgat tgatgatcat gtctcataga
7051 tcatgggtat ggagatacca aatcaataaa catggacata tgtgttagag
7101 aacacattgt tggatagacc caccatgaga cactacagga attaatgtgc
7151 cattagttgg tctcaggtag tgttggtaca aagtccttag acctgagatc
7201 accatggatt ccaacatgtg tagtagccta ctttgggact accaaacgct
7251 attccgtaac tgggtagtta taaaggtagt tttcgggttt gctatgaaac
7301 atggagtggg atgtgagtga tcaagatgga atttgcccct cctttggaga
7351 gatatctctg ggcccctcga ggtaatggat tatggaaatg catggccatg
7401 ctaagttgat tgaggagtca atcaacagac agataatcca atacggatcg
7451 agtgaatggt taagctattg aagggatggc acacatcttg cctatagctt
7501 aactggtatc gtgaggcaaa gggatttgtg tacacattac aggttcagag
7551 ccgatattat attcttgtat actatggtgt caatatgtgc tgctaggcgc
7601 cgctgttgac aggtcggctg agttggactc gagccgacga tcggctaagt
7651 tagactatag ccgaaaccga gtatacctga acctacaggg tcgcacgctt
7701 aaggggataa gaacaggcat tcgagttgga ctcggatacg gctcgatcgg
7751 atagggatcc gatcggatag agtcctatgg gcttacgacg tatgggcggc
7801 caactctatg agatacggat gagatccgat tcaaaataga gtcctgatcg
7851 gccactagtc ccagtcggcc aactctatat aaaggaggga ggggtggaga
7901 gctgcggtac gtcaattgca tcgcgtgcaa cagaagtcgc cgagatcaat
7951 ctccacggaa accctcccca ctttcgagcc aaaccctagc cttgcatcgc
8001 gtgctagcac acgggtgttc ggcgttctgt ccccggacgt gtggataccg
8051 gtagaggcgc tgctacgttg cacgctgttg atcggctgcg gatcggctac
8101 gacatccgcg aatcggctga ttggtgaatc ggttgtcccc gggtatcggc
8151 tgtcggcttg cgggaatcgg ctacactgtt ccggatcgga tagccctgat
8201 tggctatttc cgctgcatac tccaatcggt aacgatctat cggcccttac
8251 ttgcaagtgt tcctggtttg cgcggtaaaa agtttttgtt ttcggctagc
8301 gtagcttccg cgtaaccctt ca