Partial Zika Sequence Jiangxi.CHN/01/2016 ex-Venezuela

[niman]

Jiangxi Province Center for Disease Control and Prevention has released a partial sequence, Jiangxi.CHN/01/2016, from the first reported case infected in Venezuela.  
http://www.ncbi.nlm.nih.gov/nuccore/KU867812
The partial sequence exactly matches many of the prior sequences from the Americas, in contrast to sequences from the serum, urine,and saliva from this patient.  However,all such sequences are closely related to each other and trace back to the 2013/2014 sequences from French Polynesia.

Edited March 7, 2016 by niman

[niman]

LOCUS       KU867812                 564 bp    RNA     linear   VRL 04-MAR-2016
DEFINITION  Zika virus isolate Jiangxi.CHN/01/2016 nonstructural protein 5
            gene, partial cds.
ACCESSION   KU867812
VERSION     KU867812.1  GI:1002876769
KEYWORDS    .
SOURCE      Zika virus
  ORGANISM  Zika virus
            Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
            stage; Flaviviridae; Flavivirus.
REFERENCE   1  (bases 1 to 564)
  AUTHORS   Gong,T., Shi,Y., Zhou,J., Xiao,F., Liu,S.W., Li,J., Xu,G.,
            Zhang,Y., Liu,X. and Xiong,Y.
  TITLE     Detection and genetic analysis of Zika virus from the first
            imported case, China from Venezuela, February 2016
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 564)
  AUTHORS   Gong,T., Shi,Y., Zhou,J., Xiao,F., Liu,S.W., Li,J.X., Xu,G.,
            Zhang,Y.N., Liu,X.Q. and Xiong,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-MAR-2016) Institute of Microbiology, Jiangxi Province
            Center for Disease Control and Prevention, Beijing East Road 555,
            Nanchang, Jiangxi 330029, China
COMMENT     ##Assembly-Data-START##
            Sequencing Technology :: Sanger dideoxy sequencing
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..564
                     /organism="Zika virus"
                     /mol_type="genomic RNA"
                     /isolate="Jiangxi.CHN/01/2016"
                     /isolation_source="serum"
                     /host="Homo sapiens"
                     /db_xref="taxon:64320"
                     /country="China"
                     /collection_date="06-Feb-2016"
                     /note="type: Asian"
     CDS             <1..>564
                     /codon_start=2
                     /product="nonstructural protein 5"
                     /protein_id="AMN91947.1"
                     /db_xref="GI:1002876770"
                     /translation="EAEEVLEMQDLWLLRRSEKVTNWLQSNGWDRLKRMAVSGDDCVV
                     KPIDDRFAHALRFLNDMGKVRKDTQEWKPSTGWDNWEEVPFCSHHFNKLHLKDGRSIV
                     VPCRHQDELIGRARVSPGAGWSIRETACLAKSYAQMWQLLYFHRRDLRLMANAICSSV
                     PVDWVPTGRTTWSIHGKGEWMTTEDMLV"
ORIGIN      
        1 ggaggctgag gaagttctag agatgcaaga cttgtggctg ctgcggaggt cagagaaagt
       61 gaccaactgg ttgcagagca acggatggga taggctcaaa cgaatggcag tcagtggaga
      121 tgattgcgtt gtgaagccaa ttgatgatag gtttgcacat gccctcaggt tcttgaatga
      181 tatgggaaaa gttaggaagg acacacaaga gtggaaaccc tcaactggat gggacaactg
      241 ggaagaagtt ccgttttgct cccaccactt caacaagctc catctcaagg acgggaggtc
      301 cattgtggtt ccctgccgcc accaagatga actgattggc cgggcccgcg tctctccagg
      361 ggcgggatgg agcatccggg agactgcttg cctagcaaaa tcatatgcgc aaatgtggca
      421 gctcctttat ttccacagaa gggacctccg actgatggcc aatgccattt gttcatctgt
      481 gccagttgac tgggttccaa ctgggagaac tacctggtca atccatggaa agggagaatg
      541 gatgaccact gaagacatgc ttgt

[niman]

Sequences producing significant alignments:

Select:AllNone Selected:0

AlignmentsDownloadGenBankGraphicsDistance tree of resultsShow/hide columns of the table presenting sequences producing significant alignments

Sequences producing significant alignments:

Select for downloading or viewing reports	Description	Max score	Total score	Query cover	E value	Ident	Accession
Select seq gb|KU867812.1|	Zika virus isolate Jiangxi.CHN/01/2016 nonstructural protein 5 gene, partial cds	1018	1018	100%	0.0	100%	KU867812.1
Select seq gb|KU729217.2|	Zika virus isolate BeH823339 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU729217.2
Select seq gb|KU820897.1|	Zika virus isolate FLR polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU820897.1
Select seq gb|KU497555.1|	Zika virus isolate Brazil-ZKV2015, complete genome	1018	1018	100%	0.0	100%	KU497555.1
Select seq gb|KU707826.1|	Zika virus isolate SSABR1, complete genome	1018	1018	100%	0.0	100%	KU707826.1
Select seq gb|KU527068.1|	Zika virus strain Natal RGN, complete genome	1018	1018	100%	0.0	100%	KU527068.1
Select seq gb|KU647676.1|	Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU647676.1
Select seq gb|KU509998.1|	Zika virus strain Haiti/1225/2014, complete genome	1018	1018	100%	0.0	100%	KU509998.1
Select seq gb|KU501217.1|	Zika virus strain 8375 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU501217.1
Select seq gb|KU501216.1|	Zika virus strain 103344 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU501216.1
Select seq gb|KU501215.1|	Zika virus strain PRVABC59, complete genome	1018	1018	100%	0.0	100%	KU501215.1
Select seq gb|KU365780.1|	Zika virus strain BeH815744 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU365780.1
Select seq gb|KU365779.1|	Zika virus strain BeH819966 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU365779.1
Select seq gb|KU365777.1|	Zika virus strain BeH818995 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KU365777.1
Select seq gb|KJ776791.1|	Zika virus strain H/PF/2013 polyprotein gene, complete cds	1018	1018	100%	0.0	100%	KJ776791.1
Select seq gb|KU761564.1|	Zika virus isolate GDZ16001 polyprotein gene, complete cds	1012	1012	100%	0.0	99%	KU761564.1
Select seq gb|KU740184.1|	Zika virus isolate GD01 polyprotein gene, complete cds	1012	1012	100%	0.0	99%	KU740184.1
Select seq gb|KU312312.1|	Zika virus isolate Z1106033 polyprotein gene, complete cds	1012	1012	100%	0.0	99%	KU312312.1
Select seq gb|KU321639.1|	Zika virus strain ZikaSPH2015, complete genome	1012	1012	100%	0.0	99%	KU321639.1
Select seq gb|KU729218.1|	Zika virus isolate BeH828305 polyprotein gene, complete cds	1009	1009	100%	0.0	99%	KU729218.1
Select seq gb|KU365778.1|	Zika virus strain BeH819015 polyprotein gene, complete cds	1009	1009	100%	0.0	99%	KU365778.1
Select seq gb|KF993678.1|	Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds	1009	1009	100%	0.0	99%	KF993678.1
Select seq gb|KU820899.1|	Zika virus isolate ZJ03 polyprotein gene, complete cds	1000	1000	100%	0.0	99%	KU820899.1
Select seq gb|KU681081.3|	Zika virus isolate Zika virus/H.sapiens-tc/THA/2014/SV0127- 14, complete genome	1000	1000	100%	0.0	99%	KU681081.3
Select seq gb|KU744693.1|	Zika virus isolate VE_Ganxian, complete genome	1000	1000	100%	0.0	99%	KU744693.1
Select seq gb|EU545988.1|	Zika virus polyprotein gene, complete cds	994	994	100%	0.0	99%	EU545988.1
Select seq gb|JN860885.1|	Zika virus isolate FSS13025 polyprotein gene, partial cds	982	982	100%	0.0	99%	JN860885.1
Select seq gb|KU681082.3|	Zika virus isolate Zika virus/H.sapiens-tc/PHL/2012/CPC-0740, complete genome	973	973	100%	0.0	98%	KU681082.3
Select seq gb|KM851039.1|	Zika virus strain SV0127/14 nonstructural protein 5 gene, partial cds	953	953	95%	0.0	99%	KM851039.1
Select seq gb|KM078971.1|	Zika virus strain CHI2613014 NS5 protein gene, partial cds	928	928	91%	0.0	100%	KM078971.1
Select seq gb|KM078970.1|	Zika virus strain CHI2490414 NS5 protein gene, partial cds	928	928	91%	0.0	100%	KM078970.1
Select seq gb|KM078961.1|	Zika virus strain CHI2612114 NS5 protein gene, partial cds	928	928	91%	0.0	100%	KM078961.1
Select seq gb|KM078936.1|	Zika virus strain CHI1410214 NS5 protein gene, partial cds	928	928	91%	0.0	100%	KM078936.1
Select seq gb|KM078933.1|	Zika virus strain CHI1058514 NS5 protein gene, partial cds	928	928	91%	0.0	100%	KM078933.1
Select seq gb|KM078930.1|	Zika virus strain CHI2283714 NS5 protein gene, partial cds	928	928	91%	0.0	100%	KM078930.1
Select seq gb|KM078929.1|	Zika virus strain CHI1805214 NS5 protein gene, partial cds	928	928	91%	0.0	100%	KM078929.1
Select seq gb|KM851038.1|	Zika virus strain CPC-0740 nonstructural protein 5 gene, partial cds	926	926	95%	0.0	98%	KM851038.1
Select seq gb|KU179098.1|	Zika virus isolate JMB-185 nonstructural protein 5 gene, partial cds	901	901	89%	0.0	99%	KU179098.1
Select seq gb|HQ234499.1|	Zika virus isolate P6-740 polyprotein gene, partial cds	901	901	100%	0.0	95%	HQ234499.1
Select seq gb|KJ873160.1|	Zika virus isolate NC14-03042014-3481 nonstructural protein 5 gene, partial cds	892	892	87%	0.0	100%	KJ873160.1
Select seq gb|KU720415.1|	Zika virus strain MR 766 polyprotein gene, complete cds	791	791	99%	0.0	91%	KU720415.1
Select seq dbj|LC002520.1|	Zika virus genomic RNA, complete genome, strain: MR766-NIID	791	791	99%	0.0	91%	LC002520.1
Select seq gb|HQ234498.1|	Zika virus isolate MR_766 polyprotein gene, partial cds	791	791	99%	0.0	91%	HQ234498.1
Select seq gb|AY632535.2|	Zika virus strain MR 766, complete genome	791	791	99%	0.0	91%	AY632535.2
Select seq gb|KJ873161.1|	Zika virus isolate NC14-02042014-3220 nonstructural protein 5 gene, partial cds	789	789	77%	0.0	100%	KJ873161.1
Select seq gb|KF383118.1|	Zika virus strain ArD157995 polyprotein gene, complete cds	787	787	99%	0.0	91%	KF383118.1
Select seq gb|KF383119.1|	Zika virus strain ArD158084 polyprotein gene, complete cds	782	782	99%	0.0	91%	KF383119.1
Select seq gb|KF268949.1|	Zika virus isolate ARB15076 polyprotein gene, complete cds	773	773	99%	0.0	91%	KF268949.1
Select seq gb|KF383116.1|	Zika virus strain ArD7117 polyprotein gene, complete cds	769	769	99%	0.0	90%	KF383116.1
Select seq gb|HQ234500.1|	Zika virus isolate IbH_30656 polyprotein gene, partial cds	764	764	99%	0.0	90%	HQ234500.1
Select seq gb|DQ859059.1|	Zika virus strain MR 766 polyprotein gene, complete cds	764	764	99%	0.0	90%	DQ859059.1
Select seq gb|KF383121.1|	Zika virus strain ArD158095 polyprotein gene, partial cds	762	762	96%	0.0	91%	KF383121.1
Select seq gb|HQ234501.1|	Zika virus isolate ArD_41519 polyprotein gene, partial cds	760	760	99%	0.0	90%	HQ234501.1
Select seq gb|AF013415.1|	Zika virus strain MR-766 NS5 protein (NS5) gene, partial cds	755	755	95%	0.0	91%	AF013415.1
Select seq gb|KF383117.1|	Zika virus strain ArD128000 polyprotein gene, complete cds	751	751	99%	0.0	90%	KF383117.1
Select seq gb|KF268950.1|	Zika virus isolate ARB7701 polyprotein gene, complete cds	751	751	99%	0.0	90%	KF268950.1
Select seq gb|KF268948.1|	Zika virus isolate ARB13565 polyprotein gene, complete cds	751	751	99%	0.0	90%	KF268948.1
Select seq gb|KF383115.1|	Zika virus strain ArB1362 polyprotein gene, complete cds	713	713	99%	0.0	88%	KF383115.1
Select seq gb|KU556802.1|	Zika virus isolate MEX/InDRE/14/2015 NS5 protein gene, partial cds	601	601	59%	4e-168	100%	KU556802.1
Select seq gb|KF383120.1|	Zika virus strain ArD142623 nonfunctional polyprotein gene, partial sequence	554	554	96%	5e-154	82%	KF383120.1
Select seq gb|KU232300.1|	Zika virus isolate 067ZV_PEBR15 NS5 protein gene, partial cds	502	502	49%	3e-138	100%	KU232300.1
Select seq gb|KU232290.1|	Zika virus isolate 036ZV_PEBR15 NS5 protein gene, partial cds	497	497	49%	1e-136	99%	KU232290.1
Select seq gb|KU232297.1|	Zika virus isolate 049ZV_PEBR15 NS5 protein gene, partial cds	493	493	49%	2e-135	99%	KU232297.1
Select seq gb|KU232298.1|	Zika virus isolate 050ZV_PEBR15 NS5 protein gene, partial cds	482	482	47%	3e-132	99%	KU232298.1
Select seq gb|KU232296.1|	Zika virus isolate 045ZV_PEBR15 NS5 protein gene, partial cds	482	482	47%	3e-132	99%	KU232296.1
Select seq gb|KU232295.1|	Zika virus isolate 068ZV_PEBR15 NS5 protein gene, partial cds	482	482	47%	3e-132	100%	KU232295.1
Select seq gb|KU232294.1|	Zika virus isolate 061ZV_PEBR15 NS5 protein gene, partial cds	482	482	47%	3e-132	100%	KU232294.1
Select seq gb|KU232293.1|	Zika virus isolate 057ZV_PEBR15 NS5 protein gene, partial cds	482	482	47%	3e-132	99%	KU232293.1
Select seq gb|KU232291.1|	Zika virus isolate 051ZV_PEBR15 NS5 protein gene, partial cds	480	480	47%	1e-131	100%	KU232291.1
Select seq gb|KU232288.1|	Zika virus isolate 001ZV_PEBR15 NS5 protein gene, partial cds	479	479	46%	3e-131	100%	KU232288.1
Select seq gb|KU232292.1|	Zika virus isolate 054ZV_PEBR15 NS5 protein gene, partial cds	477	477	47%	1e-130	99%	KU232292.1
Select seq gb|KU232289.1|	Zika virus isolate 020ZV_PEBR15 NS5 protein gene, partial cds	475	475	46%	4e-130	100%	KU232289.1
Select seq gb|KU232299.1|	Zika virus isolate 015ZV_PEBR15 NS5 protein gene, partial cds	473	473	46%	1e-129	100%	KU232299.1

[niman]

Sequence map updated

https://www.google.com/maps/d/u/0/edit?mid=zv94AJqgUct4.kI8kcFySb4J0&hl=en