Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| FM865412 | GIV.1 | |
|
|---|---|---|---|
| GIV.P1 |
ORF1: 1..685
ORF2: 666..2336
ORF3: 2336..2965
LOCUS FM865412 2966 bp RNA linear VRL 26-JUL-2016
DEFINITION Norovirus Hu/GIV.1/Italy/980/2007/ITA partial RNA polymerase
(ORF1), capsid protein (0RF2) and partial minor structural protein
(ORF3), genomic RNA.
ACCESSION FM865412
VERSION FM865412.1
KEYWORDS .
SOURCE Norovirus Hu/GIV.1/Italy/980/2007/ITA
ORGANISM Norovirus Hu/GIV.1/Italy/980/2007/ITA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS La Rosa,G., Pourshaban,M., Iaconelli,M. and Muscillo,M.
TITLE Detection of genogroup IV noroviruses in environmental and clinical
samples and partial sequencing through rapid amplification of cDNA
ends
JOURNAL Arch. Virol. 153 (11), 2077-2083 (2008)
PUBMED 18985275
REFERENCE 2 (bases 1 to 2966)
AUTHORS La Rosa,G.
TITLE Direct Submission
JOURNAL Submitted (26-OCT-2008) La Rosa G., Environment and Primary
Prevention, Istituto Superiore Sanita', Viale Regina Elena 299,
Rome, 00161, ITALY
FEATURES Location/Qualifiers
source 1..2966
/organism="Norovirus Hu/GIV.1/Italy/980/2007/ITA"
/mol_type="genomic RNA"
/strain="Italy/980/2008"
/isolation_source="sewage sample"
/db_xref="taxon:572388"
/country="Italy"
/collection_date="23-May-2007"
/note="genogroup: GIV/1"
CDS <1..685
/function="nonstructural protein"
/note="ORF1"
/codon_start=2
/product="RNA polymerase"
/protein_id="CAR95869.1"
/db_xref="GOA:B6VPX9"
/db_xref="InterPro:IPR001205"
/db_xref="InterPro:IPR004004"
/db_xref="InterPro:IPR007094"
/db_xref="UniProtKB/TrEMBL:B6VPX9"
/translation="LISPSMLDVGDYVVQVNEGLPSGVPCTSQLNSIAHWIITLTSMA
EATGLDPDIVQANSYFSFYGDDEIVSTDIKFNPEVLTLKLKAIGLVPTRPDKTEGPLV
EGLTFLRRTITRDKVVFFGRLDKDSILRQMYWTKGPNHQDPSESMLPHQNRATQLMAL
LGESALHGQNFYKKISGMVIKEVKNGGHEFYVPKFESMYKWMRFSDLSTWEGDRDLAP
DFVNEDGVE"
CDS 666..2336
/function="major structural protein"
/note="ORF2"
/codon_start=1
/product="capsid protein"
/protein_id="CAR95870.1"
/db_xref="InterPro:IPR004005"
/db_xref="InterPro:IPR013643"
/db_xref="UniProtKB/TrEMBL:B6VPY0"
/translation="MKMASSDAAPSTDGAGNLVPESQQEVLPLAPVAGAALAAPVVGQ
TNIIDPWIKENFVQAPQGEFTVSPKNSPGEILVNLELGPKLNPYLDHLSRMYNSYAGG
IDVMVVLAGNAFTAGKVLIAAIPPNFPVEGVSASQATQFPHVIIDVRTLDPVRLPLPD
VRSTFFHYTNDTEPKMRLVIWLYTPLRTNGSGDDSFTVSGRILTRPSQDFEFAFLIPP
TVETKTTPFSVPGFSVQEMSNSRWPAAISAMVVRGNEPQVVQFQNGRAHLDGMLLGTT
PVSPNYIASYRGISTGNSRSASSEADERAVGSFDVWVRLQEPDGQPYDIFGKQPAPIG
TPDFKAVIVGFAARPLTSGSYANEAYVNTTASDYAPATGNMRFTVRNGGTGHISANKY
WEFKSFGVEGERHTNIQYQEYELPDYSGQVASNHNLAPPVAPRMPGESLLLFQSNMPV
WDDGHGESTPKKIHCLLPQEFIGHFFDKQAPSLGDAALLRYVNQETNRVLFECKLYRD
GYITVAASSGLLDFPLDGFFRFDSWVSSFYILSPVGSGQGRRGRVRFQ"
CDS 2336..>2965
/note="ORF3"
/codon_start=1
/product="minor structural protein"
/protein_id="CAR95871.1"
/db_xref="InterPro:IPR004278"
/db_xref="UniProtKB/TrEMBL:B6VPY1"
/translation="MASSIMAGIAGGVLGSVVGGLVGAGANAINQSVEFGYNQALQSN
AFQHDKDMLALQVAATRQLQSDLINLREQVLRKGGFSDTDAARGAIGAPMSRLVDWNG
TRLSAPGSMHTTSYSGRFVGTTRQQPHFTPPPQTNYVRVDDEVSSVSSLPTTVTSVPS
SRTVDWVHSQRQLSSWGSSASQHSQLEPFHPNALRVAWGSTPSSSSRAST"
ORIGIN
1 cttgatttcc ccaagtatgc ttgatgttgg cgactatgtc gtccaggtca atgaagggtt
61 accctctggt gtcccctgca cctcacaatt aaacagtatt gcccattgga tcatcactct
121 cacatccatg gctgaggcca ctggcctgga ccctgacatc gtccaggcta acagctactt
181 ctccttctat ggtgatgatg aaattgtgtc aacagacata aaattcaatc cagaggtcct
241 taccctgaaa cttaaagcaa ttggccttgt tccaacccgc ccagacaaga cagaaggccc
301 actggtggaa gggctgactt tcctgaggcg caccataact agagacaaag tggtcttctt
361 tggtcggttg gataaggatt ccattctcag gcaaatgtac tggaccaagg gcccgaacca
421 tcaagaccca tctgaaagca tgttacctca ccagaatcgc gccacacaat tgatggccct
481 gttgggcgag tcagcactcc atggtcaaaa cttctacaaa aagattagtg gcatggtaat
541 caaagaagtg aagaatggtg ggcatgagtt ctatgtgcca aagtttgagt ccatgtataa
601 gtggatgcgg ttctcagact tgagcacttg ggagggggat cgcgatctcg ctcccgattt
661 tgtgaatgaa gatggcgtcg agtgacgctg ctccatctac ggatggtgcg ggcaacctcg
721 ttccagagag tcaacaagag gtgttgcccc tcgccccagt tgcaggcgct gcgttagcgg
781 cacctgtggt ggggcaaaca aatataattg acccctggat taaagaaaat tttgttcaag
841 ccccccaggg tgagtttact gtctcaccta aaaattctcc tggtgaaatt ttagttaatt
901 tggaattggg acccaaactc aacccctatc tggaccacct ttcgcgcatg tacaactcat
961 atgctggtgg catagatgtc atggtggtgt tggcgggcaa cgccttcaca gccggcaagg
1021 ttttaatagc agctatcccc ccaaatttcc cagtggaagg agtgtccgct tcacaggcca
1081 ctcaatttcc ccatgtgatt atagatgtta ggacacttga ccctgtgcgg ctccccctcc
1141 cggatgtgcg atccacattc ttccactaca ctaatgatac tgaaccaaaa atgaggttag
1201 ttatttggct ttacacccca ctcagaacta atggcagtgg tgatgattct ttcaccgtct
1261 ctgggcgcat actcacaagg ccctcccagg actttgaatt cgctttcctt atccccccaa
1321 cagtggaaac aaagacaacc cccttctcag tgccaggctt ctcggtgcag gaaatgtcca
1381 actcaaggtg gccagctgcc atctctgcaa tggtcgtccg tgggaatgaa ccccaagttg
1441 ttcagttcca gaacggcagg gcccatctgg atggtatgct gcttggtacg acacctgtgt
1501 cgcccaatta catagcatcc taccgaggca tttccactgg caactctcgt tctgcttcct
1561 ctgaggctga cgagagggct gttggtagct ttgatgtgtg ggtccgctta caagaacctg
1621 atggccagcc ctatgacatc tttggtaagc agccagcccc aattggcacc cctgatttca
1681 aggctgtgat agttggcttt gcagctaggc ccctcacatc cgggtcctat gcaaatgaag
1741 cgtatgttaa caccacagcc agtgactacg ccccagccac tggtaatatg cgcttcacag
1801 tcaggaacgg tgggaccggg cacatatctg caaacaaata ctgggagttc aaatcatttg
1861 gtgttgaagg agaaaggcac actaacatcc agtaccagga gtatgagctt cccgattatt
1921 ctggccaagt tgcttccaac cataatctgg ccccccctgt agccccacgc atgcctggtg
1981 agtcattatt gcttttccaa tcaaatatgc ctgtgtggga tgatgggcat ggagagtcca
2041 cacccaagaa gattcattgc ctattgccac aggagtttat tggccatttc tttgataaac
2101 aagccccctc cctaggtgat gctgcactac ttaggtatgt caaccaggag acaaatagag
2161 tgttgtttga gtgtaaactt tatagggatg gttacatcac agtcgctgca tcatcaggat
2221 tattagattt ccctttggat ggattcttta ggtttgattc ttgggttagt tctttttaca
2281 ttttatcccc cgtgggaagc ggccaaggcc gcaggggtag agtgaggttt caataatggc
2341 ttctagcatt atggcaggta tagcaggcgg tgtgctgggc tcagttgtgg gtggactagt
2401 tggagccggt gctaacgcca taaaccaatc tgttgaattt gggtacaacc aagcactgca
2461 atctaatgct ttccaacatg ataaagatat gcttgcctta caggtggccg cgacccgtca
2521 gctacagtcg gatttgatca acttgcgcga gcaggttctt cgcaagggtg gtttctccga
2581 cactgacgcg gcgcgtggag ccattggtgc ccccatgtca cgccttgtgg attggaacgg
2641 cacaaggttg tccgccccgg gttccatgca cacaacatca tactcgggcc ggtttgttgg
2701 cacaaccaga caacaacccc acttcactcc tcccccacaa actaattatg ttagagttga
2761 tgatgaagtt tcttctgtct cttccttgcc cacaacggtg acctcagttc ctagttctag
2821 gacagttgat tgggtccata gtcaaaggca gctatcctcc tggggttcta gtgcatccca
2881 acactcacag ctggaaccct ttcatccaaa cgctctgaga gtggcttggg ggtctactcc
2941 gagttcctcc tccagagcgt ccactt
//