Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| AF414410 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..591
ORF2: 572..2215
ORF3: 2215..2991
LOCUS AF414410 3043 bp ss-RNA linear VRL 26-JUL-2016
DEFINITION Norwalk-like virus NLV/Miami/292/1994/US RNA polymerase (orf1)
gene, partial cds; and capsid protein (orf2) and minor structural
protein (orf3) genes, complete cds.
ACCESSION AF414410
VERSION AF414410.1
KEYWORDS .
SOURCE Norwalk-like virus NLV/Miami/292/1994/US
ORGANISM Norwalk-like virus NLV/Miami/292/1994/US
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 3043)
AUTHORS Ando,T., Monroe,S.S., Noel,J.S. and Glass,R.I.
TITLE A one-tube method of reverse transcription-PCR to efficiently
amplify a 3-kilobase region from the RNA polymerase gene to the
poly(A) tail of small round-structured viruses (Norwalk-like
viruses)
JOURNAL J. Clin. Microbiol. 35 (3), 570-577 (1997)
PUBMED 9041391
REFERENCE 2 (bases 871 to 1147)
AUTHORS Noel,J.S., Ando,T., Leite,J.P., Green,K.Y., Dingle,K.E.,
Estes,M.K., Seto,Y., Monroe,S.S. and Glass,R.I.
TITLE Correlation of patient immune responses with genetically
characterized small round-structured viruses involved in outbreaks
of nonbacterial acute gastroenteritis in the United States, 1990 to
1995
JOURNAL J. Med. Virol. 53 (4), 372-383 (1997)
PUBMED 9407386
REFERENCE 3 (bases 1 to 3043)
AUTHORS Ando,T., Noel,J.S. and Fankhauser,R.L.
TITLE Genetic classification of 'Norwalk-like viruses.
JOURNAL J. Infect. Dis. 181 (Suppl 2), S336-S348 (2000)
PUBMED 10804147
REFERENCE 4 (bases 1 to 3043)
AUTHORS Ando,T., Seto,Y., Noel,J.S., Monroe,S.S., Glass,R.I. and
Fankhauser,R.L.
TITLE Direct Submission
JOURNAL Submitted (27-AUG-2001) Viral Gastroenteritis Section/Division of
Viral and Rickettsial Diseases/National Center for Infectious
Diseases, Centers for Disease Control and Prevention, 1600 Clifton
Road, Atlanta, GA 30333, USA
FEATURES Location/Qualifiers
source 1..3043
/organism="Norwalk-like virus NLV/Miami/292/1994/US"
/mol_type="genomic RNA"
/strain="Hu/NLV/Miami/292/1994/US"
/db_xref="taxon:171842"
/clone="S09A"
/note="NLV/292; NLV/S09;
group: GII/6"
gene <1..591
/gene="orf1"
CDS <1..591
/gene="orf1"
/note="nonstructural protein"
/codon_start=1
/product="RNA polymerase"
/protein_id="AAL12982.1"
/translation="ILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKL
TQKLREYGLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLY
WTRGPNHENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFY
VPRQEAMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 572..2215
/gene="orf2"
CDS 572..2215
/gene="orf2"
/note="major structural protein"
/codon_start=1
/product="capsid protein"
/protein_id="AAL12983.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEILLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVFLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNETIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRARNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGSSVGATRAHEVHIDTTDPRYTPKLGSVLMYSESNDFDDG
QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 2215..2991
/gene="orf3"
CDS 2215..2991
/gene="orf3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAL12984.1"
/translation="MAGAFLAGLAGDAITNGVGSLISAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLAAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKITSYSGQFSSNLVHRQPTLSRSDPSKIKVNSDSASVYSSASTAPSQST
HSTVLTAGSGSSRTTSPSTTASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
3'UTR 2992..3043
ORIGIN
1 attctaactt tgagtgcaat ggcagaagtg tcaggtctct caccagatgt tgtccaagcc
61 cactcctgtt tttcatttta tggtgatgat gagatcgtta gcactgatat caaccttgac
121 cccatgaagt tgacacagaa actcagggag tatggtctgg tccccacccg acctgacaaa
181 actgaaggtc ccctcgtgat aactgaagac ctcaccggcc tgacgttcct gcgcaggtcg
241 attgcacggg atccagctgg gtggtttgga aaattagacc aagactcaat tctcaggcaa
301 ttatactgga caagggggcc caatcatgag aacccatacg agagcatggt ccctcattct
361 cagcgggcta cacagctcat ggccctgctt ggtgaggctt cactgcatgg tccccagttt
421 tacaagaagg ttagcaagat ggtcatcagt gagattaaga gtggtggtct ggaattttat
481 gtgcccagac aagaggccat gtttagatgg atgagattct ctgacctcag cacatgggag
541 ggtgatcgca atcttgctcc cgagggtgtg aatgaagatg gcgtcgaatg acgctgctcc
601 atcgaatgat ggtgctgcca acctcgtacc agaggccaac aatgaggtta tggcacttga
661 accagtggtg ggagcctcaa ttgcagctcc tgtcgttggt caacaaaata taattgaccc
721 ctggattaga gaaaattttg ttcaggcacc acagggtgag tttactgttt caccaaggaa
781 ctcacctggt gagatacttc taaatcttga attaggccca gagcttaatc cttatctgag
841 tcatttgtcc cgcatgtaca acggttatgc tggtggtatg caggttcagg tggtcctagc
901 tgggaatgcg ttcacagctg gtaaaatcat ctttgccgcc gttccaccac atttccctgt
961 agagaatatt agtgcagccc aaatcacaat gtgtcctcat gtgattgttg atgtaagaca
1021 gcttgagcca gtgtttttgc ccctccccga cataaggaat aggttcttcc actacaatca
1081 agaaaacact ccccgaatga gacttgtggc tatgttgtat acacccctta gagcaaattc
1141 tggtgaggat gtgttcacag tgtcttgcag ggtcttgacc cgcccagccc ccgactttga
1201 gtttacgttc ttagtgccac caactgtgga gtcaaagact aagcctttca cactccccat
1261 cctgactctt ggagagctat ccaactccag attccccgct ccaatagaca tgctgtacac
1321 agatcccaat gagacaattg tggtgcaacc acaaaacggc agatgcaccc tagatggaac
1381 acttcaagga accacccaac tggtgcccac ccaaatttgc tcctttaggg gcacgttaat
1441 tagccagacg tcgaggtctg cagattcaac agattcagct ccgcgggcaa ggaaccaccc
1501 tctccacgtt cagctgaaga acctcgatgg gacaccatat gatccaacag atgaggtacc
1561 ggcagtttta ggtgccatag attttaaagg aactgtgttt ggagttgcta gccaaagaaa
1621 caccacaggg agctcggtag gagcgacccg cgcccatgag gtgcacatag acactacaga
1681 ccctagatac actccaaaac ttggttctgt gttgatgtat tctgagtcta atgattttga
1741 tgatggacag cccactcgct tcacccctat tggcatggga gccgatgatt ggcaccaatg
1801 ggagctaccc gaatattctg gtcatcttac tcttaacatg aacttggccc ccgcagttgc
1861 ccctgctttt cccggtgagc gtatcctctt cttcaggtca gtggtgccat ctgctggtgg
1921 ttatgggtca ggccaaatag attgcctcat cccacaggaa tgggttcagc acttctatca
1981 ggaggccgcc ccatcacaat ctgcggtggc ccttattagg tatgtcaatc ctgacactgg
2041 gagaaacatc tttgaggcaa agttacatag agaagggttc atcaccgtgg caaattctgg
2101 aaacaacccc atagttgtgc ccccaaatgg ttacttcagg ttcgaggcct gggttaatca
2161 attctacaca ctcaccccca tgggaactgg acaggggcgc agaagagttc aataatggca
2221 ggagctttcc ttgctgggtt ggcaggtgac gccataacaa atggcgtcgg gtccctgatc
2281 agtgctgggg ccaatgcaat taaccaaaag gtagagtatg atttcaacaa acaactccaa
2341 ttggcatcct ttaaacatga caaggagatg ttgcagtcac aagttctggc cactaaacag
2401 ctccagcagg aaatgatgaa cataaggcaa ggggttttgg ccgctggcgg cttttcccct
2461 acagatgccg caagaggcgc tgtgaatgcg ccgatgacaa aaattctgga ttggaatgga
2521 acaagatact ttgccccaaa cagtatgaaa atcaccagtt attcgggcca gttctctagt
2581 aaccttgtgc ataggcaacc taccttatcc cgttctgacc cctcaaaaat taaggttaat
2641 agtgattctg ctagtgtgta tagttctgca tctactgccc cttcacaatc aacccattca
2701 acggttttga ctgcggggtc tgggtcatcc agaacaacat ccccttccac aacagcttcc
2761 actctatcta ggactagtga ctgggtaaga ggacaaaatg agaggcttag cccgttcatg
2821 gatggtgctc tccaaacaac ttttgtcaca ccaccatcga gcaaggcttc atcatatggg
2881 tcggtctcaa ccgtccccaa agctgttttg gactcctgga ctcctatgtt caacacccat
2941 aggcagcctc tcttcgctca tgtgcgtagg cgaggggagt cacaaattta gtgaaaagat
3001 tgattaggtt ttctttctct cttctttctc cttttctttc tcg
//