This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

LOC_000LN4X.1

USA/LOC_000LN4X.1/unknown
C. M. Malboeuf, X. Yang, P. Charlebois, J. Qu, A. M. Berlin, M. Casali, K. N. Pesko, C. L. Boutwell, J. P. DeVincenzo, G. D. Ebel, T. M. Allen, M. C. Zody, M. R. Henn & J. Z. Levin

Broad Institute of MIT and Harvard

Sample details

Earliest release date
2012-09-19
Sampling location
USA
Isolate name
WNV/USA/BID-G15508

Data use terms

Data use terms
OPEN
Data use terms URL

INSDC

NCBI release date
2012-09-19
NCBI update date
2013-06-24
INSDC accession

Submission details

Submission ID
JX503099.1
Submitting group
Date submitted
2026-09-09 16:34:08 UTC
Date released
2026-09-09 16:47:17 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
25
Total inserted nucs
166
Total frame shifts
1
Frame shifts
NS5:205-905(nt:8293-10395)
Length
11195 (100%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS2A:A224T
  • NS2B:A103V
  • NS3:T249P
  • NS3:L270V
  • NS3:M271R
  • NS3:I356T
  • NS4A:V85A
  • NS5:V49A
  • NS5:K177R
  • env:K93R
  • env:T126I
  • env:I159V
  • env:S452L
Variant
False

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions
  • A630G
  • C1465T
  • C1974T
  • C2321T
  • G2562A
  • T3840C
  • C4107T
  • G4195A
  • A4257G
  • G5280A
  • C5419G
  • T5423G
  • C5865T
  • T6405C
  • C7015T
  • G7797A
  • T7826C
  • T8235C
Deletions
N/A
Insertions
ins_0:TTCAGTCAAATAAAGGACACCCCGGGGGGCTTTCCGCTTTTTAGCATATTGCCCCCCCGGCTCTGGCCGGCCCCTCCTGGTTTCTTAGACATCGAGATCTTCGTGCTAAGAAACAGCTCGCACTGTGTTAATTGTTGTTAATCCTCACAAACACTACTA, ins_8292:G, ins_11029:CAAACA

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS2A

  • NS2A:A224T

NS3

  • NS3:L270V
  • NS3:M271R

NS5

  • NS5:V49A

env

  • env:L167F
  • env:S452L
Deletions
N/A
Insertions
N/A

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