API

Sequence Portal

JSON API
FunctionURL patternMethodExample
Basic informationhttp://ic4r.org/genes/[GENE_ACCESSION].jsonGEThttp://ic4r.org/genes/Os01g0100200.json
RAP and MSU accession mappinghttp://ic4r.org/tools/accession_mapping.json?q=[GENE_ACCESSION]GEThttp://ic4r.org/tools/accession_mapping.json?q=Os07g0143700
Sites Effecthttp://ic4r.org/tools/siteinfo?sites=[CHR:LOCATION];[CHR:LOCATION]...GEThttp://ic4r.org/tools/siteinfo?sites=7:2225652;7:2466

Expression

Embed
<iframe src="http://expression.ic4r.org/expression-api?term=[GENE_ACCESSION]" width='100%' height='600px' style='oveflow:hidden;border:none' />
JSON API
FunctionURL patternMethodExample
Expression profiles for genehttp://expression.ic4r.org/api/fpkm?gene=[GENE_ACCESSION]GEThttp://expression.ic4r.org/api/fpkm?gene=Os06g0651900
Expression profiles for transcripthttp://expression.ic4r.org/api/fpkm?transcript=[TRANSCRIPT_ACCESSION]GEThttp://expression.ic4r.org/api/fpkm?transcript=Os06t0324800-01

Homolog

Embed
<iframe src="http://homolog.ic4r.org/genes/[GENE_ACCESSION]/tree_iframe" width='100%' height='600px' style='oveflow:hidden;border:none' />
JSON API
FunctionURL patternMethodExample
Gene informationhttp://ic4r.org/genes/[GENE_ACCESSION].jsonGEThttp://homolog.ic4r.org/genes/Os01g0100200.json
Group informationhttp://ic4r.org/groups/[GROUP_ACCESSION].jsonGEThttp://homolog.ic4r.org/genes/PHG-00015.json

Variation

Embed
<iframe src="http://variation.ic4r.org/snpGene?gene=[GENE_ACCESSION]&embed=true" width='100%' height='600px' style='oveflow:hidden;border:none' />
JSON API
FunctionURL patternMethodExample
Count SNP sites in a regionhttp://variation.ic4r.org/snpCount.json?chr=[CHR]&posStart=[REGION_START]&posEnd=[REGION_END]GEThttp://variation.ic4r.org/snpCount.json?chr=1&posStart=1&posEnd=111111111
Show SNP sites in a region (30 per page)http://variation.ic4r.org/snp.json?chr=[CHR]&posStart=[REGION_START]&posEnd=[REGION_END]&page=[PAGE]GEThttp://variation.ic4r.org/snp.json?chr=1&posStart=1&posEnd=111111111&page=1

Literature

JSON API
FunctionURL patternMethodExample
Get related papers for specific rice genehttp://literature.ic4r.org/api/gene/[GENE_ACCESSION]/articlesGEThttp://literature.ic4r.org/api/gene/Os02g0170300/articles

Post-Translational Modification

JSON API
FunctionURL patternMethodExample
Basic informationhttp://dbppt.biocuckoo.org/getPage.php?seqID=[DBPPT_ID]GEThttp://dbppt.biocuckoo.org/getJSON.php?seqID=Q9C958
Eukaryotic protein kinases and protein phosphataseshttp://ekpd.biocuckoo.org/getJSON.php?gid==[LOC_ACCESSION]GEThttp://ekpd.biocuckoo.org/getJSON.php?gid=LOC_Os10g03750
Ubiquitin and ubiquitin-like conjugationhttp://uucd.biocuckoo.org/getJSON.php?gid=[LOC_ACCESSION]GEThttp://uucd.biocuckoo.org/getJSON.php?gid=LOC_Os06g30970