Item | Count | Description |
---|---|---|
Annotation sources | 4 | Refseq, Ensembl, ENCODE, muENCODE |
Species (Genome) | 17(21) | Human (hg18, hg19), chimpanzee (panTro4), macaque (rheMac2), mouse (mm9, mm10), rat (rn4, rn5), cow (bosTau6), horse (equCab2), chicken (galGal4), zebrafish (Zv9), drosophila (dm3), Caenorhabditis elegans (ce6, ceX), Saccharomycer cerevisiae (sacCer3), Schizosaccharomyces pombe (Asm294), Helicobacter pylori (Asm852v1), Sulfolobus acidocaldarius (sulfAcid1), Arabidopsis thaliana (TAIR10), Zea mays (AGPv2) |
Biotypes | 7 | TSS, TES, genebody, exon, CGI, DHS, enhancer |
Gene type | 5 | Protein coding, lincRNA, miRNA, pseudogene, misc (everything else) |
Exon types | 7 | canonical, promoter, polyA, variant, altDonor, altAcceptor, altBoth |
CGIs | 10 | Hg18, hg19, mm9, mm10, rn4, rn5, bosTau6, galGal4, panTro4, rheMac2 |
Enhancers | 9 (hg19) | Url: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHmm/ |
Cell types: H1hesc (default), Gm12878, Hepg2, Hmec, Hsmm, Huvec, K562, Nhek, Nhlf. | ||
15 (mm9) | Url: http://chromosome.sdsc.edu/mouse/download.html. Cell types: mESC, bone marrow, cerebellum, cortex, heart, intestine, kidney, liver, lung, MEF, olfactory bulb, placenta, spleen, testes, thymus. | |
DHS | 125 (hg19) | Url: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAwgDnaseUniform/. Cell types: H1hesc, A549, Gm12878, Helas3, Hepg2, Hmec, Hsmm, Hsmmtube, Huvec, K562, Lncap, Mcf7, Nhek, Th1, |
Region analysis | 8 | ProximalPromoter, Promoter1K, Promoter3K, Genebody, Genedesert, OtherIntergenic, Pericentromere, Subtelomere |