[dbsnp-announce] dbSNP Build 138 Release Phase III: Mouse, Arabidopsis, Fruitfly, Bee, and Nematode
Public announcements regarding dbSNP
dbsnp-announce at ncbi.nlm.nih.gov
Thu Aug 15 15:54:31 EDT 2013
Build Summary by Organism
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organism: Mus musculus
tax_id: 10090
Assembly: GRCm38.p1 (GCF_000001635.21)
Annotation: Mus musculus Annotation Release 103 (GCF_000296565.1)
total_ss_cnt: 122723771
total_rs_cnt: 71105894
new_ss_cnt: 5240636
new_rs_cnt: 1069044
FTP: ftp://ftp.ncbi.nih.gov/snp/organisms/mouse_10090
Entrez: http://www.ncbi.nlm.nih.gov/snp/?term=txid10090
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organism: Arabidopsis thaliana
tax_id: 3702
Assembly: TAIR10 (GCF_000001735.3)
Annotation: Arabidopsis thaliana Annotation Release 101 (GCF_000003475.2)
total_ss_cnt: 1163172
total_rs_cnt: 1069597
new_ss_cnt: 1162871
new_rs_cnt: 1069296
FTP: ftp://ftp.ncbi.nih.gov/snp/organisms/arabidopsis_3702
Entrez: http://www.ncbi.nlm.nih.gov/snp/?term=txid3702
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organism: Apis mellifera
tax_id: 7460
Assembly: Amel_4.5 (GCF_000002195.4)
Annotation: Apis mellifera Annotation Release 101 (GCF_000194595.1)
total_ss_cnt: 1121589
total_rs_cnt: 1119078
new_ss_cnt: 1536
new_rs_cnt: 995
FTP: ftp://ftp.ncbi.nih.gov/snp/organisms/bee_7460
Entrez: http://www.ncbi.nlm.nih.gov/snp/?term=txid7460
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organism: Caenorhabditis elegans
tax_id: 6239
Assembly: WS195 (GCF_000002985.4)
Annotation: Caenorhabditis elegans Annotation Release 101 (GCF_000006465.3)
total_ss_cnt: 308165
total_rs_cnt: 192044
new_ss_cnt: -40272*
new_rs_cnt: -139392*
FTP: ftp://ftp.ncbi.nih.gov/snp/organisms/nematode_6239
Entrez: http://www.ncbi.nlm.nih.gov/snp/?term=txid6239
*Decreased due to submission withdrawn.
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organism: Oryza sativa
tax_id: 4530
Assembly: Build_4.0 (GCF_000005425.2)
Annotation: Oryza sativa Annotation Release 100 (GCF_000234515.1)
total_ss_cnt: 12571151
total_rs_cnt: 10966784
new_ss_cnt: 6698845
new_rs_cnt: 5607215
FTP: ftp://ftp.ncbi.nih.gov/snp/organisms/rice_4530
Entrez: http://www.ncbi.nlm.nih.gov/snp/?term=txid4530
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Updates:
* Entrez search for Reference SNP (RS) with the 'rs' prefix (ie. rs328) has been restored. Searching can also be done without the 'rs' prefix (ie. 328).
* The human b138_MapLink.bcp.gz file on the FTP site has been updated to fix the strand orientation for 66K rs. The reported NM allele was wrong when rs and mrna are both in reverse orientationto the genome.
ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606/database/organism_data/b138_MapLink.bcp.gz
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