Typing tool
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Typing tool
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Complete norovirus genomes
| AF414407 | GII.6 | |
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| GII.P7 |
ORF1: 1..591
ORF2: 572..2224
ORF3: 2224..3003
LOCUS AF414407 3057 bp ss-RNA linear VRL 26-JUL-2016
DEFINITION Norwalk-like virus NLV/Florida/269/1993/US RNA polymerase (orf1)
gene, partial cds; and capsid protein (orf2) and minor structural
protein (orf3) genes, complete cds.
ACCESSION AF414407
VERSION AF414407.1
KEYWORDS .
SOURCE Norwalk-like virus NLV/Florida/269/1993/US
ORGANISM Norwalk-like virus NLV/Florida/269/1993/US
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 81)
AUTHORS Ando,T., Jin,Q., Gentsch,J.R., Monroe,S.S., Noel,J.S., Dowell,S.F.,
Cicirello,H.G., Kohn,M.A. and Glass,R.I.
TITLE Epidemiologic applications of novel molecular methods to detect and
differentiate small round structured viruses (Norwalk-like viruses)
JOURNAL J. Med. Virol. 47 (2), 145-152 (1995)
PUBMED 8830118
REFERENCE 2 (bases 1 to 3057)
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 3 (bases 1 to 3057)
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 3057)
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..3057
/organism="Norwalk-like virus NLV/Florida/269/1993/US"
/mol_type="genomic RNA"
/strain="Hu/NLV/Florida/269/1993/US"
/db_xref="taxon:171839"
/clone="pYS06A"
/note="NLV/269; NLV/FL-11551; NLV/S06;
group: GII/6"
gene <1..591
/gene="orf1"
CDS <1..591
/gene="orf1"
/note="nonstructural protein"
/codon_start=1
/product="RNA polymerase"
/protein_id="AAL12973.1"
/translation="ILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKL
TQKLREYGLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLY
WTRGPNHENPYESMVPHSQRATQLMALLGEASLHGPQFYKRVSKMVINEIKSGGLEFY
VPRQEAMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 572..2224
/gene="orf2"
CDS 572..2224
/gene="orf2"
/note="major structural protein"
/codon_start=1
/product="capsid protein"
/protein_id="AAL12974.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPAVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPTLTLGELSNPRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQTARAADSTDSPQRARNHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDVSGQQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSDSDDF
NTNQPIRFTPVGMGDNNWRQWELPDYSGRLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
gene 2224..3003
/gene="orf3"
CDS 2224..3003
/gene="orf3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAL12975.1"
/translation="MAGAFFAGLAGDVASNGVGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDRNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAAPQHIAPPKSKLQGDSASVYSFPSTVSSQS
THSTVLSAGTGSSRSTSTSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
3'UTR 3004..3057
ORIGIN
1 atactaactt tgagtgcaat ggcagaagtt tcaggcctct caccagatgt tgttcaagcc
61 cactcctgtt tttcatttta tggtgatgat gagattgtta gcactgatat caaccttgat
121 cccatgaaat tgacacagaa actcagggag tacggtttgg ttcccacccg acctgataaa
181 actgaaggcc ccctcgtcat aactgaagac ctcaccggcc tgacgttcct gcgtaggtcg
241 attgcgcggg atccggctgg gtggtttgga aaattggacc aggactcaat tctcaggcaa
301 ttatactgga caaggggacc taatcatgag aacccatacg agagcatggt cccccactcc
361 cagcgggcca cacagctcat ggcccttctt ggtgaggctt cactgcatgg tccccagttt
421 tacaagagag ttagcaagat ggtcatcaat gagatcaaga gtggtggtct ggaattttat
481 gtgcccagac aagaggccat gtttaggtgg atgagattct ctgacctcag cacatgggag
541 ggcgatcgca atcttgctcc cgaaggtgtg aatgaagatg gcgtcgaatg acgctgctcc
601 atcgaatgat ggtgctgcca acctcgtacc agaggccaac aatgaggtta tggcacttga
661 accggttgtg ggagcctcaa tcgcagctcc tgctgtcggt cagcaaaata taattgaccc
721 ctggattaga gaaaatttcg tccaagcacc acagggcgag ttcactgttt caccaaggaa
781 ttcgcctggt gagatgctct taaatcttga gttgggccca gaacttaatc cctatttgag
841 tcatttgtcc cgcatgtaca atggatatgc tggtggcatg caggttcagg tggtcctagc
901 tgggaatgcg ttcacagctg ggaaaatcat ctttgccgcc gtaccaccac atttccctgt
961 agaaaacatc agtgcagctc agataactat gtgtccccat gtgattgttg atgtgaggca
1021 gcttgaacca gtgcttttgc ccctccctga tataaggaat aggttcttcc actacaacca
1081 ggagaacacc ccccgaatga gactcgtagc tatgctctac acacctctaa gggccaattc
1141 tggcgaggat gtgttcactg tgtcctgtag ggttttgact cgccctgctc cagattttga
1201 gtttacattt ttagtaccac caactgttga atcaaaaaca aaacccttca ctttacctac
1261 tctgaccctt ggtgagttgt ctaaccctcg ctttccggct gctatagata tgctttatac
1321 tgatcctaat gaatcaatag ttgtacaacc ccaaaatggt aggtgcactc ttgatggcac
1381 cttgcaaggc acaacacaat tagtccccac acagatttgt gcttttaggg gcaccctgat
1441 cagccagacc gcgagagcgg ccgactcaac agactccccc cagagagccc gtaatcatcc
1501 attacacgtc caggtcaaga acctagacgg cacacagtac gacccaacgg atgatatacc
1561 tgcagtcctg ggggctattg acttcaaagg cacagtcttt ggagtggcta gtcagaggga
1621 cgtctctgga caacaagaac agggtcacta tgccaccaga gcccatgaag cacacattga
1681 cacaactgac ccaaagtatg cacctaaatt gggcacaatt cttatcaaat ctgattctga
1741 tgattttaac acaaatcagc ccattaggtt caccccggtg ggcatgggtg acaacaattg
1801 gaggcagtgg gaattacccg actattctgg cagactaacc ttgaatatga accttgcccc
1861 tgctgtttct ccatccttcc ctggtgaacg aattcttttc ttcaggtcta tagtaccatc
1921 agccggcggc tacgggtctg gttacataga ctgtctcata ccccaggaat gggtgcagca
1981 cttctaccag gaagcagcgc cttcacaatc agccgttgca ctggttaggt atgtcaatcc
2041 cgatactggg cgtaacatct ttgaggccaa gttacacagg gaaggcttcc tcaccgtggc
2101 caattctgga aacaacccaa ttgtggtccc ccccaatggt tattttagat ttgaggcttg
2161 ggttaatcag ttttatacac ttgcccccat gggatctgga caggggcgta gaagggccca
2221 ataatggctg gagccttctt cgcagggtta gcaggtgatg tcgcgtcgaa cggcgtcggg
2281 tcccttatta atgcaggtgc taatgcagtt aatcaaaagg ttgagtatga ttttaataag
2341 caacttcaga tggcatcatt taaacatgac aaggagatgc tacaatcaca ggtgttggca
2401 actaaacaac tgcagcagga gatgatgaac ataagacagg gggtgttgac cgctggcggc
2461 ttctcccctg cggatgctgc tagaggggct gttaatgctc caatgacgaa gatactggac
2521 cggaatggca caagatactg ggcaccaaac agcatgaaaa ccacaagcta ctcaggacag
2581 ttctctagca gccctgtaca cagatcccct gctgctcccc agcacattgc tccaccaaaa
2641 agtaagttgc aaggtgattc tgctagtgtg tatagttttc cctctactgt ttcttcacaa
2701 tcaacccatt caacagtgct gtctgcagga actgggtcat ccaggtccac ctccacgtcc
2761 acagcaacct ccaccctgtc tcggaccagc gactgggtta gaggtcagaa tgaaaggctt
2821 agcccgttta tggatggtgc cctccaaact acctttgtca caccaccatc gagcaaagct
2881 tcatcaaatg ggacggtctc aaccgtaccc aaagctgttt tggactcctg gactcctatg
2941 ttcaatacgc ataggcagcc tctcttcgcc cacttgcgta ggcgggggga gtcacagatt
3001 tagtgaaaag agtgattagg ttttccttcc ctttctcttt ctccttttct ctcttac
//