SeattleSeq Annotation 138
Sponsored by SeattleSNPs and SeattleSeq     
  
About SeattleSeq Annotation
How to Use
Build Notes
Download Example Input Files
SeattleSeq Annot. latest
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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)
Maq
GFF3
CASAVA
VCF (SNVs only)
custom
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
Genes
HapMap Frequencies:
minor
reference
Has Genotypes
dbSNP Validation
Repeats
Protein Accession
cDNA Position
PolyPhen:
Clinical Association
Distance To Nearest Splice Site
microRNAs
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


or

Input Annotation File for Table Display
does not yet support VCF-in-VCF-out or one-genotype-per-line


or

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


or

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 http://snp.gs.washington.edu/SeattleSeqAnnotation150.
March 22, 2015 -- Exome Aggregation Consortium allele counts have been added ... more
other recent -- The dbSNP build is 138. Many function class changes.
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