ID AY842951; SV 1; linear; genomic DNA; STD; VRL; 8295 BP. XX AC AY842951; XX DT 23-JAN-2005 (Rel. 82, Created) DT 02-MAY-2006 (Rel. 87, Last updated, Version 3) XX DE Reticuloendotheliosis virus strain HA9901 from China, complete genome. XX KW . XX OS Reticuloendotheliosis virus OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Gammaretrovirus. XX RN [1] RP 1-8295 RX DOI; 10.1007/s11427-006-0149-8. RX PUBMED; 16704118. RA Wang Y., Cui Z.; RT "Sequence analysis for the complete proviral genome of RT reticuloendotheliosis virus Chinese strain HA9901"; RL Sci. China, C, Life Sci. 49(2):149-157(2006). XX RN [2] RP 1-8295 RA Wang Y., Cui Z.; RT ; RL Submitted (01-DEC-2004) to the INSDC. RL Preventive Veterinary Medicine, Shandong Agricultural University, 61 RL Daizong Street, Taian, Shandong 271018, China XX DR MD5; 6d14018b805d348e24a26ca5877082f0. DR EuropePMC; PMC4734002; 26637454. DR EuropePMC; PMC6128223; 30233638. DR EuropePMC; PMC6476468; 31009463. DR RFAM; RF01092; GP_knot2. XX FH Key Location/Qualifiers FH FT source 1..8295 FT /organism="Reticuloendotheliosis virus" FT /host="Gallus gallus" FT /strain="HA9901" FT /mol_type="genomic DNA" FT /country="China" FT /proviral FT /note="from meat-type fowl flock" FT /db_xref="taxon:11636" FT repeat_region 1..550 FT /rpt_type=LONG_TERMINAL_REPEAT FT primer_bind 551..940 FT CDS 941..2443 FT /codon_start=1 FT /product="gag protein" FT /db_xref="GOA:Q5G5J9" FT /db_xref="InterPro:IPR000840" FT /db_xref="InterPro:IPR001878" FT /db_xref="InterPro:IPR003036" FT /db_xref="InterPro:IPR008919" FT /db_xref="InterPro:IPR010999" FT /db_xref="InterPro:IPR036875" FT /db_xref="InterPro:IPR036946" FT /db_xref="UniProtKB/TrEMBL:Q5G5J9" FT /protein_id="AAW57299.1" FT /translation="MGQAGSKGLLTPLECILKNFSDFKKRAGDYGGDVDSFTLRKLCES FT EWPTLGVGWPKEGTLDFGVVVAVRNIVFGKHEGHPDQVIYITVWTDITIERPKYLKDCG FT CKPTGPSKVLLASQKVNPRRPVLPSAPESPPRTRRAQFLDERPLSPAPAPPPPYPEVPA FT IAEEGEEGQQPDSTVMASPPHTRSGLEFGAQGPSGMYPLRETGERDMGGRPMRTYVPFT FT TSDLYNWKNQNPSFSQAPDEVISLLESVFYTHQPTWDDCQQLLRTLFTTEERERVRTES FT RREVRNDQGVQVTDEREIEAQFPATRPDWDPNTGRGNDNLERYRQILLRGLRAAARKPT FT NLSKITEVRQGADESPTAYLERLYQAYRTWSPIDPRAPENQAAIVIQFVSQSAPDIRKK FT IQKIDGFQGKSLSELVAIAQKVFDQREDPAKATHELTRKMAKVLLAQESRAERGSKKTP FT PGKGRPPLGKNQCAYCKEEGHWKKNCPKLVSGATPVLVEELQ" FT CDS <2444..6025 FT /codon_start=1 FT /product="protease/polymerase" FT /db_xref="GOA:Q5G5J8" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001584" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR002156" FT /db_xref="InterPro:IPR012337" FT /db_xref="InterPro:IPR015416" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR036397" FT /db_xref="InterPro:IPR040643" FT /db_xref="InterPro:IPR041577" FT /db_xref="UniProtKB/TrEMBL:Q5G5J8" FT /protein_id="AAW57300.1" FT /translation="GRQGSSALREPRLKVKVGGQIIDFLVDTGATHSVVQKPVGPMSKE FT SVAIIGATGNIRNYPKSEGRLVDLGRGLVTHSFLVIPECPDPLLGRDLLQKLRATISFT FT GGGPPEIRTEGKLLVTAPLEEEYRLFLEAPIQNVTLLEQWKRGIPKVWAEINPPGLAST FT QAPIHVQLLSTALPVRVRQYPITLEAKRSLRETIHKFRAAGILRPVHSPWNTPLLPVRK FT SGTSEYRMVQDLREVNKRVETIHPTVPNPYTLLSLLPPDRIWYSVLDLKDAFFCIPLAP FT ESQLIFAFEWADAEEGESGQLTWTRLPQGFKNSPTLFDVALNRDLQGFRLDHPSVSLLQ FT YVDDLLIAADTQAACLSATRDLLMTLAELGYRVSGKKAQLCQEEVTYLGFKIHKGSRSL FT SNSRTQAILQIPVPKTKRQVREFLGTIGYCRLWIPGFAELAQPLYAATRGGNDPLVWGE FT KEEEAFQSLKLALTQPPALALPSLDKPFQLFVEETSGAAKGVLTQALGPWKRPVAYLSK FT RLDPVAAGWPRCLRAIAAAALLTREASKLTFGQDIEITSSHNLESLLRSPPDKWLTNAR FT ITQYQVLLLDPPRVRFKQTAALNPATLLPETDDTLPIHHCLDTLDSLTSTRPDLTDQPL FT AQAEATLFTDGSSYVRDGKRYAGAAVVTLDSVIWAEPLPIGTSAQKAELIALTKALEWS FT KDKSVNIYTDSRYAFATLHVHGMIYRERGLLTAGGKAIKNAPEILALLTAVWLPKRVAV FT MHCKGHQKDDAPTSTGNRRADEVAREVAIRPLSTQATISDAPDMPDTETPQYSNVEEAL FT GHRLRGTKDPAGWWHLPDGRLLLPRAVGRKVLEQTHRATHLGESKLTELVRKHYLICGI FT YRAARDITTRCVACAQVNPGAAPVEKGLNSRIRGAAPGEHWEADFTEMITAKGGYKYLL FT VLVDTFSGWVEAYPAKRETSQVVIKHLIHDIIPRFGLPVQIGSDNGPAFVAKVTQQLCE FT ALNVSWKLHCAYRPQSSGQVERMNRTLKETIAKLRKETGGDWVSLLPQALLRARCTPGR FT EGLSPFEILYGLKPPVVPRVGCDKLASITNQTLLKSLQALQATRSLARATLRDQLPQKE FT AQQDRTPLFQPGDLVFVKKHDFQQLGPRWDGPYTVVLSTPTAVKVAGKTPWIHYSRLKK FT APDNQEEWTVSPTSDPLRVKLTRRAKP" FT CDS 5962..7716 FT /codon_start=1 FT /product="envelope glycoprotein" FT /db_xref="GOA:Q5G5J7" FT /db_xref="InterPro:IPR018154" FT /db_xref="UniProtKB/TrEMBL:Q5G5J7" FT /protein_id="AAW57301.1" FT /translation="MDCLTNLRSTEGKVDQAGKTLILLVVWWGFGTTAESHPSQQLWGL FT PCDCSGGYVSPTPTHYTNSLDCGSFTAYLTYGSGAGSWGWGGGFRQQWECVFKPKIIPS FT VQEQPRPCECLTIATQMHSTCYEKAQECTLMGKTYFTAILQKTKLGSYEDGPNKLLQAS FT CTGIIGKPVCWDPAAPVYVSDGGGPTDMIREESVRERLEEIIRHSYPSVQYHPLALPRP FT RGVDLDPQTSDILEATHQVLNATNPRLAENCWLCMTLGTPIPAAIPANGEVTLDGNCSL FT SLPFRVQPTGSVDVNCYAGEADNRTGIPVGYVHFTNCTSIQEVSNETSHIRNLTRLCPP FT PGHVFVCGNNMAYTALPNKWIGLCILASIVPDMSIISGEEPIPLPSIEYTAGRHKRAVQ FT FIPLPVGLGITGATLTGGTGLGVSVHTYHKLSNQLIEDVQALSGTINDLQDQIDSLAEV FT VLQNRRGLDLLTAEQGGICLALQEKCCFYANKSGIVRDKIRKLQEDLLARKRALYDNPL FT WNGLNGFLPYLLPLLGPLFGLILFLTLGPCIMKTLTRIIHDKIQAVKILALVPQYKPLP FT TEMDTLGQ" FT misc_feature 7717..7745 FT /note="ppt; polypurine tract" FT repeat_region 7746..8295 FT /rpt_type=LONG_TERMINAL_REPEAT XX SQ Sequence 8295 BP; 2084 A; 2172 C; 2200 G; 1839 T; 0 other; aatgtgggag ggagctccgg gggggggaat agcgctggct cgctaactgc cgtattagct 60 tctgtaatca tgcttgcttg ccttagccgc cattgtactt gatatatttc gctgatatca 120 tttctcggaa tcagcatcat ttctcggaat cggcatcaag agcaggctca tagaccataa 180 aaggaaatgt ttgttgaagg caagcatcag gccacttgcg ccatccaatc acgagcaaac 240 acgagatcga actatcatac tgagccaatg gttgtaaagg gcagatgcta tcctccaatg 300 agggaaaatg tcatgcaaca tcctgtcctg taagcggcta tataagccag gtgcacctct 360 tgctcggggt cgccgtccta cacattgttg tgacgtgcgg cccagattcg aatctgtaat 420 aaaagttttc ttttcttcta tatcctcaga ttggcagtga gaggagattt tgttcgtggt 480 gtaggctggc ctactgggtg gggttgggat ccggactgaa tccgtagaat ttctgtacaa 540 catttggggg ctcgtccggg attcctcccc atcggcagag gtgcctactg tttcttcgaa 600 ctccggcgcc ggtaagtaag tacttgattt tggtacctcg cgaggatttg ggaggatcgg 660 agtggcggga cgctgccggg aagctccacc tccgctcagc aggggacgcc ctgatctggg 720 ttctgtggta tctgattgtt gttgaaccgt ctccaagacg gtggtaatat aagtcgtggt 780 ttgtgtgttt gtttgttacc ttgtgtttgt tcgtcacttg tcgacagcgc cctgcgaatt 840 ggtgtgccca caccgcgcgg cttgcgaata atactttgga gagtcttttg cctccagtgt 900 cttccgtttg tactcgtcct cctctccctc tccggccggg atgggacagg caggatcgaa 960 ggggctttta acccctctag agtgcattct gaagaacttc tctgacttta agaagagggc 1020 gggagactat gggggggatg tggattcgtt taccctgcgc aagttatgtg agtcggaatg 1080 gcccacgttg ggcgtggggt ggccaaagga agggactcta gactttgggg tggtagtcgc 1140 ggtcaggaat atagtttttg ggaaacatga agggcatcca gaccaggtaa tatatataac 1200 cgtctggaca gatataacca tagaaaggcc taaatacttg aaagattgtg ggtgtaaacc 1260 cacaggaccc tctaaagttc tgttagctag ccaaaaagtt aatcccaggc ggcccgtgct 1320 cccctcagcc cccgaaagcc cccctcggac aaggagggct caattcctgg atgagagacc 1380 tctctctccg gccccagccc ctccacctcc atatcctgag gtacctgcca ttgcagagga 1440 aggtgaggag gggcaacaac cagactctac tgtaatggcg agccctcccc acacccgaag 1500 tggattagag ttcggagcac aagggccgtc agggatgtac ccccttaggg aaactgggga 1560 acgggatatg ggtggtcgcc ccatgagaac atatgtccca ttcaccacct cggatctgta 1620 taattggaaa aaccaaaacc catcattctc ccaggctcca gatgaagtaa ttagcctact 1680 agaatctgtt ttctatacgc accagcccac ctgggatgat tgccagcaac tcctccgtac 1740 cctgtttacg acggaggaga gggagagggt gaggacagaa agtaggcggg aggtcaggaa 1800 tgatcaagga gtacaggtca ctgacgagcg cgaaatagaa gcccagttcc cagctactcg 1860 gcccgactgg gatcctaaca cagggagagg aaacgacaat ctagaacgat atcgccagat 1920 cttgctgagg gggctccggg cagcggcacg gaaacccacc aatctttcta aaataactga 1980 ggttcggcag ggggcggacg aaagccctac agcttacctg gagagactct atcaggctta 2040 tcggacctgg tcccccatag atccaagggc acccgagaat caggctgcca tagtcattca 2100 atttgtatct caatccgcgc ccgatattag gaagaaaatc caaaagatag atgggttcca 2160 gggaaaatct ctctccgagt tagtagctat tgcccagaag gttttcgacc aacgggagga 2220 cccagccaag gcaactcacg agctcacccg gaagatggcc aaggtactac tcgcccagga 2280 gagtagagcg gagagaggaa gtaagaagac gcctccgggt aagggacgcc cgcccttggg 2340 gaaaaaccaa tgcgcgtact gtaaggagga gggacattgg aagaagaact gtccaaaact 2400 cgtaagcggg gcaaccccag tgttggtaga agaattacag tagggccgtc agggttcttc 2460 cgccctccgt gaacccaggc taaaggttaa agtagggggg caaataatag attttctagt 2520 agatacggga gcgacccatt ctgtagtgca gaaacctgtg gggcctatgt ctaaggaatc 2580 tgtagcaatt atcggggcta ctgggaatat acggaattac cctaagtctg aagggcgtct 2640 tgtggaccta gggaggggac tagtgactca ttcatttcta gtgattcctg agtgcccaga 2700 cccactattg gggagggatc tattacagaa gctaagggct accatctcgt tcaccggggg 2760 agggcccccc gaaatacgga cagaagggaa actattggta acggctcccc tggaagagga 2820 ataccgtttg tttttagagg cgccgataca aaatgttacg ctgctagagc agtggaaacg 2880 gggaatcccg aaagtctggg ccgagataaa tcccccgggg ttggcatcca cacaagcccc 2940 cattcatgtc cagctactaa gtaccgccct acctgtgagg gtaagacagt atcctattac 3000 cctggaggca aaacgaagcc tgcgcgaaac tattcacaaa ttcagagcag cgggcatcct 3060 gagacccgtc cactccccct ggaacactcc cctcctccct gtgcgaaagt ccggcacgtc 3120 cgagtatcgg atggttcaag atttaaggga agtaaacaag agggtagaga ctattcaccc 3180 aactgtccct aacccataca ccctcctcag cctattgccc cctgaccgaa tatggtattc 3240 tgttttggac ctgaaagacg cttttttctg catccctctg gcccccgagt cgcaattgat 3300 cttcgcattc gagtgggcag atgcggagga aggagaatca gggcaactaa cctggactag 3360 gctacctcag ggttttaaga actcacccac cctttttgat gtagccctta acagggatct 3420 gcagggattt cgacttgatc acccttccgt ttccctcctt cagtatgtag acgacttact 3480 tattgcggct gatacacaag ccgcgtgcct gagcgccacc cgagacttac tcatgacttt 3540 ggcggagctg gggtaccggg tttcagggaa gaaggcccag ctctgtcaag aggaagtcac 3600 atacttgggg ttcaagatcc ataagggatc acggtcccta tcgaatagcc gaactcaggc 3660 tattcttcag ataccagtac cgaaaaccaa aaggcaggtg cgcgaatttt taggcacaat 3720 tgggtactgc aggctttgga tcccggggtt tgccgaactt gcccagcccc tatatgcggc 3780 aacgcggggg ggaaacgatc ctttagtgtg gggcgaaaaa gaggaagaag cgttccagag 3840 cttgaaacta gccctcaccc agccaccagc tttggctctg ccctccctag ataagccctt 3900 ccagctcttc gtagaagaaa caagcggggc ggccaaggga gtgctcacac aggccctcgg 3960 tccatggaaa agacccgtag cctacttatc caaaaggctg gaccctgtgg cggctggctg 4020 gccccggtgc ctccgagcca ttgcggcagc cgctcttctc acaagagaag cctctaaact 4080 taccttcggg caggacatag agatcacttc gtcccataac ttggagagtt tgctgcgatc 4140 ccctcctgac aagtggttga ccaatgctcg catcacgcag taccaggtac tgctcctgga 4200 ccctccccga gtgcgcttta agcagactgc ggccctcaat ccggctaccc tgttacccga 4260 gacagacgat acactgccaa tacaccattg cctggacact ttagattctc tgacctccac 4320 ccgccccgac ctgacggatc agcccctggc acaagcggaa gccactctgt tcactgacgg 4380 cagcagctac gtacgagacg gaaaacgata cgccggtgca gcagtggtaa ctctggattc 4440 tgttatttgg gcagaacccc tcccaattgg aacatcagcc cagaaagcag aattgatcgc 4500 actaacaaag gccctggaat ggagcaagga caagagcgtc aacatctaca cggatagccg 4560 ttatgcattc gccactctac acgtccatgg gatgatctac agagaaaggg gactgttgac 4620 agcaggggga aaggctatca aaaacgcccc cgaaattcta gccttgctga ccgcggtctg 4680 gctacctaaa cgggtggctg tgatgcattg caagggacac cagaaagacg atgcacccac 4740 gtcaactggt aaccgacggg cagatgaggt ggctcgagaa gtagctatac gtcctttgag 4800 cacccaggcc accatctccg atgcaccgga tatgccagat accgaaaccc ctcagtattc 4860 gaatgtagag gaggctctag gacatcggct gagggggacc aaagaccctg ctgggtggtg 4920 gcaccttcct gacgggcgcc tcttgcttcc cagagcagtg gggagaaagg tcctagagca 4980 aactcacaga gccacacatt tgggtgaatc aaaattgact gagttagtta gaaaacacta 5040 tcttatctgt gggatttatc gagcagctag agatatcacc acccgctgtg tggcatgtgc 5100 ccaggtaaac cctggagcag ctcccgtgga gaaaggactc aattcccgta tcagaggtgc 5160 ggcgccaggg gaacactggg aggcggattt cacagaaatg ataacagcca aaggggggta 5220 taaatacctg cttgtactgg tagacacatt ctcgggctgg gtagaggcat atccagcaaa 5280 gagagaaacc tcccaggtgg taattaagca tctaattcat gatattatcc ccaggtttgg 5340 gttaccggtc cagatcgggt ccgacaatgg gccggccttt gtggcaaaag tgacacagca 5400 gttgtgtgag gccctaaatg tctcttggaa gctccattgt gcataccgac ctcaaagctc 5460 gggacaggta gaaaggatga accgaaccct gaaggagacc atcgctaaat tgaggaaaga 5520 gacaggaggg gactgggtct ccctcctccc tcaggctttg ctccgggcac gatgtacccc 5580 cgggagggag ggattgtcac ccttcgagat attatatggt ctcaagcctc ctgtagttcc 5640 ccgtgtagga tgtgacaagc ttgccagcat aaccaaccaa accctgctta agtccctaca 5700 ggccctccaa gctactaggt ctctggctcg ggcaacgctg cgcgaccaac tgccccagaa 5760 agaagctcag caagaccgta ccccactgtt ccaacctggt gacctcgtct tcgttaagaa 5820 gcacgacttc cagcagttgg ggccacggtg ggacggaccc tacactgtag tcctcagtac 5880 ccccaccgcg gtaaaggtcg ctgggaagac cccgtggatc cactactctc gactcaagaa 5940 agctcctgac aaccaagaag aatggactgt ctcaccaacc tccgatccac tgagggtaaa 6000 gttgaccagg cgggcaaaac cctaattctt cttgtggttt ggtgggggtt tgggaccact 6060 gccgagagtc acccctcgca gcaactttgg ggactgcctt gtgactgctc cgggggatat 6120 gtctccccca cacctaccca ttacaccaac tccctcgatt gcggtagctt caccgcctac 6180 ctgacttacg ggtctggggc agggagttgg ggctggggag ggggatttag acaacagtgg 6240 gagtgtgtgt ttaaacccaa gatcataccc tctgtgcagg agcagccaag gccctgcgaa 6300 tgcctcacga tagccaccca aatgcattcc acctgttatg aaaaggctca ggaatgcacc 6360 ctcatgggaa aaacttattt tactgccatc ctacagaaaa caaagctagg ttcgtatgaa 6420 gacgggccta ataaactgct tcaagcctct tgcacgggaa tcatagggaa accagtatgt 6480 tgggaccccg cagcccctgt gtatgtctct gatgggggcg gtcccactga catgattcgg 6540 gaagaatctg tgcgtgaaag actagaggaa atcatcaggc acagctaccc ctccgtacag 6600 tatcaccctt tagccctgcc ccgaccaaga ggagtagacc tggatcccca gacgtctgac 6660 atactggaag ctactcacca ggtccttaac gccactaatc cccggctagc agagaactgc 6720 tggctttgca tgactcttgg aactccaatc cccgcagcca tcccggcgaa tggcgaagtc 6780 accctcgatg gaaattgcag tcttagcctc ccctttcggg tgcaacccac cgggtcagta 6840 gatgtcaact gctatgcagg ggaagcagac aataggactg gtatacccgt agggtatgtt 6900 catttcacca actgcaccag catccaggag gtctctaacg agacaagtca cataagaaat 6960 cttacgaggc tatgtcctcc accgggtcat gtatttgtgt gtgggaacaa catggcctac 7020 acggcgctcc ctaataaatg gatagggttg tgcatactgg catcaatcgt acccgacatg 7080 agcataatat ccggggaaga gcctatccca ctcccatcca tcgagtacac cgccgggcgt 7140 cataagagag cagtccagtt tatccccctg cctgtaggtc tagggattac aggggctaca 7200 cttactggtg gaactgggct tggggtttcc gttcacactt atcacaagct ttctaatcaa 7260 ttgattgaag atgtccaggc tctttcaggg accatcaatg acctacagga ccagattgac 7320 tccctggctg aggttgtctt acaaaataga agggggttag acctattgac tgccgaacaa 7380 ggagggatat gtctcgcact ccaggagaag tgctgttttt acgccaacaa gtcgggtatc 7440 gtacgtgaca agatccggaa actccaagag gaccttctcg cgaggaaacg tgcactgtac 7500 gacaaccccc tgtggaacgg cttgaacggc ttccttccat atttgctacc cttgttgggc 7560 cccctgtttg ggctcatatt gttcctgacc ctcggcccgt gcatcatgaa gaccctgact 7620 cgcattatcc atgataaaat tcaggcagta aaaatcctcg cattagtccc gcagtacaag 7680 ccactcccaa cagagatgga taccctaggt caatgatttg accagaatat gcaagagcag 7740 tggggaatgt gggagggagc tccggggggg ggaatagcgc tggctcgcta actgccgtat 7800 tagcttctgt aatcatgctt gcttgcctta gccgccattg tacttgatat atttcgctga 7860 tatcatttct cggaatcagc atcatttctc ggaatcggca tcaagagcag gctcatagac 7920 cataaaagga aatgtttgtt gaaggcaagc atcaggccac ttgcgccatc caatcacgag 7980 caaacacgag atcgaactat catactgagc caatggttgt aaagggcaga tgctatcctc 8040 caatgaggga aaatgtcatg caacatcctg tcctgtaagc ggctatataa gccaggtgca 8100 cctcttgctc ggggtcgccg tcctacacat tgttgtgacg tgcggcccag attcgaatct 8160 gtaataaaag ttttcttttc ttctatatcc tcagattggc agtgagagga gattttgttc 8220 gtggtgtagg ctggcctact gggtggggtt gggatccgga ctgaatccgt agaatttctg 8280 tacaacattt ggggg 8295 //