Typing tool
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Typing tool
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Complete norovirus genomes
| L07418 | GI.2 | |
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| GI.P2 |
ORF1: 5..5371
ORF2: 5355..6995
ORF3: 6995..7630
LOCUS SOUCAPPRO 7708 bp ss-RNA linear VRL 27-MAR-1996
DEFINITION Southampton virus capsid protein, polyprotein, and ORF genes,
complete cds.
ACCESSION L07418
VERSION L07418.1
KEYWORDS Calicivirus; Norwalk-like; Southampton virus.
SOURCE Southampton virus
ORGANISM Southampton virus
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 13 to 7708)
AUTHORS Lambden,P.R., Caul,E.O., Ashley,C.R. and Clarke,I.N.
TITLE Sequence and genome organization of a human small round-structured
(Norwalk-like) virus
JOURNAL Science 259 (5094), 516-519 (1993)
PUBMED 8380940
REFERENCE 2 (bases 1 to 7708)
AUTHORS Lambden,P.R., Liu,B. and Clarke,I.N.
TITLE A conserved sequence motif at the 5' terminus of the Southampton
virus genome is characteristic of the Caliciviridae
JOURNAL Virus Genes 10 (2), 149-152 (1995)
PUBMED 8560774
REFERENCE 3 (bases 13 to 7708)
AUTHORS Lambden,P.R.
TITLE Direct Submission
JOURNAL Submitted (05-JAN-1993) Paul R. Lambden, Molecular Microbiology,
University of Southampton, University Medical School, Southampton
General Hospital, Southampton S016 6YD, UK
REFERENCE 4 (bases 1 to 7708)
AUTHORS Lambden,P.R.
TITLE Direct Submission
JOURNAL Submitted (08-MAR-1995) Paul R. Lambden, Molecular Microbiology,
University of Southampton, University Medical School, Southampton
General Hospital, Southampton S016 6YD, UK
COMMENT On Mar 27, 1996 this sequence version replaced gi:712844.
Original source text: Southampton virus cDNA to genomic RNA.
FEATURES Location/Qualifiers
source 1..7708
/organism="Southampton virus"
/mol_type="genomic RNA"
/db_xref="taxon:11984"
5'UTR 1..4
CDS 5..5371
/codon_start=1
/product="polyprotein"
/protein_id="AAA92983.1"
/translation="MMMASKDVVATNVASNNNANNTSATSRFLSRFKGLGGGASPPSP
IKIKSTEMALGLIGRTTPEPTGTAGPPPKQQRDRPPRTQEEVQYGMGWSDRPIDQNVK
SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERVKDDSPPGEQVKWSARDGVNI
GVERLTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTV
GVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCF
EFCCQVMNLEDTWLQRRLVTSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGL
VSQPFKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASL
LPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLE
IFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEE
EKARKLSAKNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIG
KTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKILDDCNK
LQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVY
CSAPEVEQIRRVSPGDTSALKDCFKLDFSHLKMELAPQGGFDNQGNTPFGKGTMKPTT
INRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLR
GVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGNSVNIKEERNILTQQQQSVCTAS
VALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPRE
HKCRVHMAKAAGKGPIGHDDVVEKYGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGR
GRRNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG
GIGETEMEIRHRVFYKSKSRKHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDER
EVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSPTVFITTTHVIPTSAKEFFGEPLTSI
AIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIA
SMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKS
GNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVY
EPAYLGGRDPRVTVGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMD
TPVPWSYSDACQSLDKTTSSGFPYHRRKNDDWNGTTFVRELGEQAAHANNMYEQAKSM
KPMYTGALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKSHTIKLPI
KVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELAS
VVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDV
IQSMSYFSFYGDDEIVSTDIEFDPAKLTQVLREYGLRPTRPDKSEGPIIVRKSVDGLV
FLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEA
SLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVN
DDGV"
CDS 5355..6995
/function="viral capsid"
/note="putative"
/codon_start=1
/product="capsid protein"
/protein_id="AAA92984.1"
/translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA
TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM
PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGNSDSFVVAGRVLTAPSSDFSFL
FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ
LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR
ISKTPNNTGSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST
PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC
LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ
QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI"
CDS 6995..7630
/note="ORF; putative"
/codon_start=1
/protein_id="AAA92985.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN
TFEHDKDMLSYQVQASNALLAKNLNTRYSMLIAGGLSSADASRAVAGAPVTRLIDWNG
TRVAAPRSSATTLRSGGFMAVPMPVQPKSKTPQSSGFSNPAYDMSTVSSRTSSWVQSQ
NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR"
3'UTR 7631..7708
ORIGIN
1 gtgaatgatg atggcgtcga aagacgtcgt tgcaactaat gttgcaagca ataacaatgc
61 taacaacact agtgctacat ctcgattttt atcgagattt aagggcctag gaggtggcgc
121 aagcccccct agccctataa aaattaaaag tacagaaatg gctctggggt taattggcag
181 aacgacccca gaaccaacag ggaccgctgg tccaccaccc aaacaacaga gggaccgacc
241 tcctagaact caggaggagg tccagtatgg tatggggtgg tctgacaggc ccattgatca
301 aaacgtcaaa tcatgggaag agcttgacac cacagtcaag gaagagatcc tagacaacca
361 caaggaatgg tttgacgctg gtggtttggg tccttgcaca atgcctccaa catatgaacg
421 ggtcaaggat gacagtccac ctggtgaaca ggttaaatgg tccgcacgtg atggagtcaa
481 cattggagtg gagcgcctca caacagtgag tggacccgag tggaatcttt gccctttacc
541 ccccattgac ttgaggaata tggaaccagc tagtgaaccc actattggag atatgataga
601 attctatgaa ggccacatct atcattactc catatacatt gggcaaggca aaacagtcgg
661 cgtccattct ccacaggcag cgttctcagt ggctagggtg accatccaac ccatagccgc
721 ttggtggagg gtttgttaca taccccaacc caagcacaga ctgagttacg accaactcaa
781 ggaattagag aatgagccat ggccatatgc ggccataacc aataattgtt ttgaattctg
841 ctgtcaagtc atgaatcttg aggacacatg gttacaaagg cggctggtca cgtcgggcag
901 attccaccac cccacccaat cgtggtcaca acagacccct gagttccagc aagatagcaa
961 gttagagttg gtcagggacg ccatattagc tgcagtaaat ggtcttgttt cgcagccctt
1021 taagaacttc ttgggtaaac tcaaacctct caatgtgctc aacattctgt ccaactgtga
1081 ttggaccttc atgggagtgg tggagatggt catactatta cttgaactct ttggcgtgtt
1141 ctggaacccg cctgatgtgt ccaatttcat agcgtccctc ctccctgact tccatcttca
1201 gggacctgaa gacttggcac gagatctagt cccagtgatt cttggcggta taggactggc
1261 catcgggttc accagagata aggtcacaaa ggttatgaag agtgctgtgg atggtcttcg
1321 agctgctaca caattgggac agtatgggtt agaaatattc tcactactca aaaagtattt
1381 ctttgggggg gatcagactg agcgcaccct caaaggcatt gaggcggcag tcatagatat
1441 ggaagtgttg tcctccacat cagtgacaca gctagtgagg gacaaacagg cagcaaaagc
1501 ttatatgaac atcttggaca atgaagaaga gaaggccagg aagctctctg ctaaaaacgc
1561 tgacccacat gtgatatcct caacaaatgc cctaatatcg cgcatatcca tggcacgatc
1621 tgcattggct aaggcccagg ctgaaatgac cagtcgaatg agaccagttg tcattatgat
1681 gtgtggtcca cctgggattg ggaagaccaa ggctgctgag cacctagcaa aacgtctagc
1741 caatgagatc agacctggtg gtaaggtggg gttagttccc cgtgaagctg tcgaccactg
1801 ggacggttat catggtgagg aagtgatgct gtgggacgac tatggcatga caaaaatact
1861 cgatgactgt aataaactcc aagccattgc tgattcggcc ccacttacct taaattgtga
1921 taggattgaa aacaaaggaa tgcagttcgt ttcagatgca atagtcatca ccaccaacgc
1981 cccaggcccc gcccctgtgg actttgtcaa ccttggtcca gtgtgtagac gggtcgactt
2041 cttggtctac tgctctgccc cagaggtgga acagatacgg agggttagcc ctggtgatac
2101 atcagcactg aaagactgct tcaagctaga cttctcccat ttaaaaatgg aactggcccc
2161 acaaggtggg tttgacaatc aagggaacac accgtttggc aaaggtacca tgaagccaac
2221 aaccattaac agacttctca tacaagctgt ggcccttacc atggaaaggc aggatgagtt
2281 ccagctacag ggaaagatgt atgactttga tgatgacagg gtgtcagcgt tcaccaccat
2341 ggcacgtgat aatggcctag gcatcctgag catggcaggt ctgggtaaga agctacgcgg
2401 tgtcacaacg atggagggct taaaaaatgc cctgaagggg tacaaaatta gtgcgtgcac
2461 gataaaatgg caggccaaag tgtactcact agaatcagat ggtaacagtg tcaacattaa
2521 agaggagagg aacatcctaa ctcagcaaca acagtcggtg tgtactgcct ctgtcgcgct
2581 cactcgtctt cgagctgcgc gcgcggtggc atacgcgtca tgcatccagt cggctataac
2641 ttccatacta caaattgctg gctcagccct agtggtcaac agagcagtga agagaatgtt
2701 tggcacgcgt actgccacct tgtccctaga gggccccccc agagaacaca aatgcagggt
2761 ccatatggcc aaggccgcag gaaagggacc tattggccat gatgatgtgg tagaaaagta
2821 tgggctttgc gaaactgagg aggacgaaga agtggcccac actgaaatcc cttctgctac
2881 catggaaggc aagaacaagg ggaagaacaa gaaaggacgt ggtcggagga acaattacaa
2941 cgccttctcc cgcagaggac tcaatgatga agagtacgaa gagtacaaga agatacgcga
3001 ggagaaaggt ggcaattata gcatacagga gtacctagaa gacagacaaa gatatgaaga
3061 agagctagca gaggttcaag caggcggaga tggaggaatt ggggaaactg aaatggaaat
3121 ccgccacaga gtgttctaca aatccaagag cagaaagcat caccaggaag agcgacgcca
3181 gctagggctg gtgacaggct ccgacattcg gaagagaaaa ccaatcgact ggaccccacc
3241 caagtcagca tgggcagatg atgagcgtga ggtagattac aatgagaaga tcagctttga
3301 agcgcccccc actttatgga gcagagtgac aaagtttggg tctggatggg gtttctgggt
3361 cagccctaca gtcttcataa ccacaacgca cgttatacca accagtgcga aggagttctt
3421 tggtgaaccc ctaaccagca tagccatcca cagggctggt gagtttactc tcttcaggtt
3481 ttcaaagaaa attaggcctg atcttacagg tatgatcctt gaggagggtt gccccgaggg
3541 cacggtgtgt tcagtactaa taaagaggga ctctggtgaa ctactgccat tggccgtgag
3601 aatgggcgcg atagcatcaa tgcgcataca gggccgcctt gtccatgggc aatctggcat
3661 gttactcact ggtgctaatg ctaagggcat ggatcttgga accatcccag gagactgtgg
3721 ggctccttat gtttataaga gagctaatga ctgggtggtc tgtggtgtgc acgctgctgc
3781 caccaaatca ggcaacaccg ttgtgtgcgc cgttcaggcc agtgaaggag aaaccacgct
3841 tgaaggcggt gacaaaggtc attatgctgg acatgaaata attaagcatg gttgtggacc
3901 agccctatca actaagacca aattctggaa atcatccccc gaaccactgc cccctggggt
3961 ttatgaaccc gcctacctcg ggggccggga ccctagggtg actgtcggtc cctcacttca
4021 acaagtgttg cgggatcagc taaagccatt tgctgagcca cgaggacgca tgccagagcc
4081 aggtctcttg gaggccgcag ttgagactgt gacttcatca ttagagcagg ttatggatac
4141 tcccgtcccc tggagctata gtgatgcgtg ccagtccctt gacaagacca ctagttctgg
4201 cttcccctac cacagaagga agaatgacga ctggaatggc accacctttg ttagggagtt
4261 aggtgagcag gcggcacacg ccaacaacat gtatgagcag gctaaaagta tgaaacccat
4321 gtacacggga gcacttaaag atgaactagt caaaccagag aaagtatacc agaaagtgaa
4381 aaagcgcttg ttatgggggg cagacttggg cacggtagtt cgggctgcac gggcttttgg
4441 cccattctgt gatgctataa aatcccacac aatcaagttg cctatcaaag ttggaatgaa
4501 ttcaattgag gatgggccac tgatctatgc agaacattca aaatataagt accactttga
4561 tgcagattac acagcttggg actcaactca aaataggcaa atcatgacag agtcattttc
4621 aatcatgtgt cggctaactg catcacccga actagcttcg gtggtggctc aagacttgct
4681 cgcaccctca gagatggatg ttggcgacta cgtcataaga gtgaaggaag gcctcccatc
4741 tggtttccca tgcacatcac aagttaatag tataaaccat tggttaataa ctctgtgcgc
4801 cctttctgaa gtgactggcc tgtcgccaga cgttatccaa tccatgtcat atttctcttt
4861 ctatggtgat gatgaaatag tgtcaactga catagaattt gatccagcaa aactgacaca
4921 agttcttagg gagtatggac ttagacccac ccgccccgac aaaagcgagg gcccaataat
4981 tgtaaggaag agtgtggatg gtttggtctt cttacgtcgc actatctccc gtgacgctgc
5041 gggatttcaa gggcgactgg accgagcatc cattgaaaga caaatctact ggactagagg
5101 acccaaccat tcagaccctt ttgaaaccct ggtgccacac caacaaagga aagtccaact
5161 aatatcatta ttgggtgagg cctcactgca tggtgagaag ttctacagga agatttcaag
5221 caaagtcatc caggaaatta aaacaggggg ccttgaaatg tacgtgccag gatggcaagc
5281 catgttccgt tggatgcggt tccatgacct tggtttgtgg acaggagatc gcaatctcct
5341 gcccgaattt gtaaatgatg atggcgtcta aggacgcccc tcaaagcgct gatggcgcaa
5401 gcggcgcagg tcaactggtg ccggaggtta atacagctga ccccttaccc atggaacccg
5461 tggccgggcc aacaacagcc gtagccactg ctgggcaagt taatatgatt gatccctgga
5521 ttgttaataa ttttgtccag tcaccacaag gtgagttcac aatttcccct aataataccc
5581 ccggtgatat tttgtttgat ttacaattag gtccacatct aaaccctttc ttgtcacatt
5641 tgtcccaaat gtataatggc tgggttggaa atatgagagt taggattctt cttgctggga
5701 atgctttctc agctggaaag attatagttt gttgtgtccc ccctggcttc acgtcttcct
5761 ctctcaccat agctcaggct acattgtttc cccatgtgat tgctgatgtg agaacccttg
5821 aaccaataga aatgcctctc gaggatgtac gcaatgtcct ctatcacacc aatgataatc
5881 aaccaacaat gcggttggtg tgtatgctct acacgccgct ccgtactggt gggggatctg
5941 gtaattctga ttctttcgta gttgctggta gggtgctcac ggctcctagt agcgacttca
6001 gtttcttgtt ccttgtccca cctactatag aacagaagac tcgggctttt actgtgccta
6061 atatcccctt gcaaaccttg tccaattcta gatttccttc cctcatccag gggatgatcc
6121 tgtctcctga cgcatctcaa gtggtccagt ttcaaaatgg acgatgcctt atagatggcc
6181 aactcctagg caccacaccc gctacatcag gacagctgtt cagagtaaga ggaaagataa
6241 atcagggagc ccgcacgctt aacctcacag aggtggatgg caaaccattc atggcatttg
6301 attcccctgc acctgtgggg ttccccgatt ttggaaaatg tgattggcat atgagaatca
6361 gcaaaacccc aaataacaca ggctcaggtg atcccatgcg cagtgtcagc gtgcagacca
6421 acgtgcaggg ttttgtacca cacctgggaa gcatacagtt tgatgaagtg ttcaaccacc
6481 ccacaggtga ctacattggc accattgaat ggatttccca gccatctaca cctcctggaa
6541 cagatattaa tctgtgggag attcccgatt atggatcatc cctttcccaa gcagctaatc
6601 tggccccccc agtattcccc cctggatttg gtgaggctct tgtgtacttt gtttctgctt
6661 ttccaggccc caacaaccgc tcagccccga atgatgtacc ttgtcttctt cctcaagagt
6721 acataaccca cttcgtcagt gaacaagccc caacaatggg tgacgcagct ttgctgcatt
6781 atgtcgaccc tgataccaac aggaaccttg gggagttcaa actataccct ggaggttacc
6841 tcacctgtgt accaaacggg gtgggtgccg ggcctcaaca gcttcctctt aatggtgttt
6901 ttctctttgt ctcttgggta tctcgctttt atcagctcaa gcctgtggga acagccagta
6961 cggcaagagg taggcttgga gtgcgccgta tataatggcc caagccatta taggagcaat
7021 tgccgcgtca gctgctggct cagcattggg tgcgggcatc caggctggtg ccgaagctgc
7081 gcttcagagt cagagatacc aacaagactt agccctgcaa aggaatactt ttgaacatga
7141 taaagatatg ctttcctacc aggttcaggc aagtaatgca cttttagcaa agaatctcaa
7201 tacccgctat tctatgctta ttgcaggagg tctttctagt gctgatgctt cacgggctgt
7261 tgctggagcc ccagtaacac gattgattga ttggaacggc actcgggttg ccgcccccag
7321 atcaagtgca acaactctga ggtctggtgg cttcatggca gttcccatgc ctgttcaacc
7381 caaatctaag accccacaat cctctgggtt ctctaatcct gcttatgata tgtccacagt
7441 ttcctctagg acttcttctt gggtgcagtc acaaaattcc ctgcgaagtg tatcaccatt
7501 ccacaggcag gccctgcaga ctgtatgggt cactccacct gggtctactt cttcttcttc
7561 tgtttcctca acaccttatg gtgtttttaa cacggatagg atgccgctat tcgcaaattt
7621 gcggcgctaa tgttgtaata taatgcagca gtgggcacta tattcaattt ggtttaatta
7681 gtaaataatt tggctattga ttagtgtt
//