Release 3.2 (Aug 2018)
|
Release 3.2 (Aug 2018) |
| Genome Version |
| Species | Gene annotation | Version |
|---|---|---|
| Mouse | RefSeq | Release 83 |
| Ensembl | Release 67 | |
| Human | RefSeq | Release 83 |
| Ensembl | Release 75 | |
| FANTOM5 | Aug 09, 2017 | |
| Rat | RefSeq | Release 83 |
| Ensembl | Release 79 | |
| Chicken | RefSeq | Release 83 |
| Ensembl | Release 85 |
| Summary of PolyA_DB version 3.2 |
| Human | Mouse | Rat | Chicken | |
|---|---|---|---|---|
| No. of samples used | 107 | 246 | 11 | 9 |
| No. of PAS reads used | 365,601,757 | 761,795,074 | 23,616,600 | 29,104,491 |
| No. of PASs | 290,168 | 384,337 | 61,905 | 65,909 |
| No. of genes listed | 28,959 | 23,538 | 14,295 | 12,292 |
| No. of genes with 3' end extension | 15,829 | 15,304 | 8,607 | 8,358 |
| Median 3' end extension size(nt) | 1,529 | 921 | 649 | 1,075 |
| No. of mRNA genes | 17,475 | 19,232 | 14,124 | 12,130 |
| No. of ncRNA genes | 11,484 | 4,306 | 171 | 162 |
| Sample list |
| Species | Sample | No. of replicates | No. of PAS reads |
|---|---|---|---|
| Human | A549 cells | 1 | 1,904,382 |
| Human | U87 cells | 4 | 11,605,312 |
| Human | HEK293 cells | 7 | 17,520,283 |
| Human | HeLa cells | 25 | 78,904,647 |
| Human | Embroyonic stem cells | 7 | 20,992,021 |
| Human | Tissue mix | 3 | 11,224,423 |
| Human | MCF7 cells | 4 | 5,836,425 |
| Human | 293T cells | 7 | 18,322,377 |
| Human | HTR8 cells | 5 | 22,440,198 |
| Human | Neural stem cells | 17 | 32,565,958 |
| Human | Cerebellum | 4 | 28,862,575 |
| Human | JEG3 cells | 5 | 20,985,499 |
| Human | LNCaP cells | 6 | 18,700,102 |
| Human | MCF10A cells | 1 | 8,133,793 |
| Human | MDA-MB-231 cells | 1 | 10,349,391 |
| Human | MDA-MB-468 cells | 1 | 6,670,321 |
| Human | Mammary epithelial cells | 1 | 5,095,222 |
| Human | MeWo cells | 6 | 21,647,307 |
| Human | SKBR3 cells | 1 | 10,525,835 |
| Human | T474 cells | 1 | 13,315,686 |
| Mouse | C57 brain | 3 | 13,881,067 |
| Mouse | FVB brain | 2 | 7,482,063 |
| Mouse | C57 heart | 3 | 13,533,459 |
| Mouse | FVB heart | 2 | 6,996,872 |
| Mouse | C57 testis | 3 | 19,613,694 |
| Mouse | FVB testis | 2 | 15,049,845 |
| Mouse | 3T3 L1 cells | 27 | 76,914,757 |
| Mouse | C2C12 cells | 50 | 151,835,526 |
| Mouse | Embryonic stem cells | 7 | 7,693,131 |
| Mouse | NIH3T3 cells | 81 | 271,767,998 |
| Mouse | Other brain | 8 | 4,913,813 |
| Mouse | Other testis | 21 | 41,301,953 |
| Mouse | Whole embryo | 5 | 14,168,157 |
| Mouse | Tissue mix | 1 | 4,210,918 |
| Mouse | Other heart | 16 | 45,031,651 |
| Mouse | muscle | 4 | 32,317,324 |
| Mouse | 4T1 cells | 5 | 17,895,197 |
| Mouse | MH-S cells | 3 | 11,997,437 |
| Mouse | Mouse stem cells | 3 | 5,190,212 |
| Rat | Brain | 2 | 3,901,979 |
| Rat | Heart | 2 | 3,590,863 |
| Rat | Testis | 2 | 6,413,264 |
| Rat | Tissue mix,adult | 2 | 2,764,014 |
| Rat | Whole body neonatal | 3 | 6,946,480 |