SeattleSeq Annotation 138

Input Variation List File for Annotation

use reference NCBI 37/hg19
annotations for the NCBI gene model will be returned
enter e-mail address:
input file format:
(SNVs only unless otherwise indicated)
VCF (SNVs only)
one genotype per line
GATK bed (indels only)
VCF (indels only)
VCF SNVs and Indels (both)
  specify output file format:
SeattleSeq Annotation file format
VCF file format
add more annotation:
Alleles Submitted
Genotype in dbSNP
dbSNP Individual ID:
Find an Individual ID
Alleles in dbSNP
Conservation Score phastCons
Conservation Score GERP
CADD C Score non-commercial applications only
Chimp Allele
Copy Number Variations
HapMap Frequencies:
Has Genotypes
dbSNP Validation
Protein Accession
cDNA Position
Clinical Association
Distance To Nearest Splice Site
Grantham Score
KEGG Pathways
CpG Islands
Transcription Factor Binding Sites
NHLBI ESP Allele Counts
split ESP Afr/Eur
ExAC Allele Counts
split ExAC
Protein-Protein Interactions


Input Annotation File for Table Display

does not yet support VCF-in-VCF-out or one-genotype-per-line


Input One SNV

chromosome (1-22, X, Y):
hg19 genomic location:
first allele (A, C, G, T):
second allele (A, C, G, T):


Input One Indel

(VCF convention)
chromosome (1-22, X, Y):
hg19 genomic location:
reference allele(s):
alternate allele(s):

SeattleSeqAnnotation138 was most recently updated August 11, 2016. The current version is 9.10. The most recent site, based on dbSNP build 150 and hg38/NCBI 38, is at
This site is being maintained with minimal technical support, and is scheduled to be shut down July 1, 2023. We recommend switching to another annotation service such as VEP.
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