- Please find below all of our RNA-Seq data. All reads will also be deposited to the GEA database as soon as we have a complete set of tables to complement the reads (read counts / transcripts, fold change etc).
- Legend:
N : O. sativa, var. Nipponbare
K: O. sativa, var. Kasalath
9: O. sativa, var. 93-11
p: O. puncata
- Sample collection:
Each individual sample corresponds to the aerial portion of 5 seedlings, harvested at 4 days after germination. The five seedlings were pooled and RNA was extracted. For each genotype, three independent biological replicates were processed, with the exception of Nipponbare, for which five biological replicated were processed.
- Bioinformatics:
– Files denoted with a “*” were processed by Illumina’s CASAVA 1.8 pipeline. Therefore sequence qualities are already in sanger format. All other files contain quality scores inIllumina format
– Checksum is method to check to make sure the file downloaded is the exact file you wanted to download. This also helps ensure the download is complete. The checksums provided below are for the uncompressed version of the file. To obtain the checksum please run one of the following commands (please note for large files this might take a little bit longer):
– For Mac Os X, please run the following command in the terminal: “md5 filename” where filename is the name of the file you want to know the checksum
– For Linux, please run the following command in the terminal: “md5sum filename” where filename is the name of the file you want to know the checksum
- Please do not hesitate to contact us with any question email
| Genotypes | Read Length | Sequence File Link | File Checksum |
| Nipponbare(1) | 80 PE | Nipponbare_1_F.txt.gz | e67bf48ae23812517c560754518bef83 |
| Nipponbare_1_R.txt.gz | 077b1b85f4c9a54f94d7046cbb543350 | ||
| Nipponbare(2) | 80 PE | Nipponbare_2_F.txt.gz | 81bf61110db0c8586af0d490fd83ad85 |
| Nipponbare_2_R.txt.gz | d301cb5501b3486a68b2c642b88a9f1d | ||
| Nipponbare(3) | 80 PE | Nipponbare_3_F.txt.gz | 28b6d7b730962ba08d1980656ba3b2d7 |
| Nipponbare_3_R.txt.gz | d0f39b4323f92e64dad537d82deda2ee | ||
| Nipponbare_3_F_BGI-5.txt.gz* | 5d04bb9a127aeb2e523083a19b181a4d | ||
| Nipponbare_3_R_BGI-5.txt.gz* | dc0cdeb6a011d0a89eb52ea6e054872b | ||
| Nipponbare_3_F_BGI-6.txt.gz* | f89156501a8c06bb2c642ac3095c2ce7 | ||
| Nipponbare_3_R_BGI-6.txt.gz* | b2ef2c0b2c64970f9df0e8882fd9b4b9 | ||
| Nipponbare(4) | 80 PE | N_4_F.txt.gz* | 74674d72ba76a3cd403f50a7016cb646 |
| N_4_R.txt.gz* | 8970e75163b308b012cef2c98f3ca374 | ||
| Nipponbare(5) | 80 PE | N_5_F.txt.gz* | 82a9b6732e2ffcbd478d4ecebf231633 |
| N_5_R.txt.gz* | d1244e0796738281b1ae7040674fea81 | ||
| Kasalath(1) | 80 PE | Kasalath_1_F.txt.gz | 7aa2986e5b8ea01e7432acbf5dbe4028 |
| Kasalath_1_R.txt.gz | 18c12cf4c1584be730662029a25b7160 | ||
| Kasalath_1_F_BGI-5.txt.gz | 0bf0497447eb2bed224575fcf6c1b24f | ||
| Kasalath_1_R_BGI-5.txt.gz | 653940c102c414059143f61af960299f | ||
| Kasalath_1_F_BGI-6.txt.gz | d19cfc9405d6e6967298205e0584ff3d | ||
| Kasalath_1_R_BGI-6.txt.gz | 43599cdc8e2a0afab24ebb7a0bf13c0d | ||
| Kasalath(2) | 80 PE | Kasalath_2_F.txt.gz | f361347bc43caa296479cdb31ad52a9f |
| Kasalath_2_R.txt.gz | 0b49f6ed3a38bc1c8123afa828d38ce7 | ||
| Kasalath_2_F_BGI-5.txt.gz | 82c4ae0767032de6adeca2bab8d7ddcb | ||
| Kasalath_2_R_BGI-5.txt.gz | 96b2e0fb25103c01f3722a3cde5be0f9 | ||
| Kasalath_2_F_BGI-6.txt.gz | 981c210bfdcab9d2267cc3e066441ca9 | ||
| Kasalath_2_R_BGI-6.txt.gz | b56c1329b32acbc1ff0a384291d54033 | ||
| Kasalath(3) | 80 PE | Kasalath_3_F.txt.gz | baa30c230c48ee1c6270a498eaee21e4 |
| Kasalath_3_R.txt.gz | b6d11922a3540f271c7d5c7e9138f13d | ||
| Kasalath_3_F_BGI-5.txt.gz | c55cb0a899fbba091a2c6c363b11fa18 | ||
| Kasalath_3_R_BGI-5.txt.gz | d0b55ba6c4c0b051c996bf6eb9c71975 | ||
| Kasalath_3_F_BGI-6.txt.gz | 508f76ac75875e4552c2b19502538572 | ||
| Kasalath_3_R_BGI-6.txt.gz | 3df30d5cd651e683d1e09477b76dd705 | ||
| punctata (1) | 80 PE | punctata_1_F.txt.gz | 8c5cc918b06a3cdcdef3e6838efb67cc |
| punctata_1_R.txt.gz | 938c1b09405e4fe671db34f5d239bda7 | ||
| punctata (2) | 80 PE | punctata_2_F.txt.gz | 2ced28b30591378e97572e02e4035f55 |
| punctata_2_R.txt.gz | 8b287f419fd2b698ca9df871ee08647b | ||
| punctata (3) | 80 SR | puncatata_3_80SR.txt.gz | f85ad45873fbb0002a3ccf3c6a85803d |
| N x K (1) | 80 PE | NxK_1_F_BGI-5.txt.gz | ce3b70e669096e83ac4b2d9198b504dd |
| NxK_1_R_BGI-5.txt.gz | b2e9e7424581271e3121c6dcd497b9f9 | ||
| NxK_1_F_BGI-6.txt.gz | 640613154a1a24c3505da4690cc7dfe2 | ||
| NxK_1_R_BGI-6.txt.gz | 1094a299cc12468f87d2d21f29ba1417 | ||
| N x K (1) | 80 SR | NxK_1_80SR.txt.gz | 0ea5af156b2887554b563bde1404ae29 |
| N x K (2) | 80 PE | NxK_2_F_BGI-5.txt.gz | cc0e08e665f6df373ad5beeb48cd7752 |
| NxK_2_R_BGI-5.txt.gz | 1e27f0f53f600736eeb17d9468baa6c5 | ||
| NxK_2_F_BGI-6.txt.gz | d0fd8a1bf2ded141ca4f4950ea2adeb6 | ||
| NxK_2_R_BGI-6.txt.gz | eb949ae2bf5eb06eae1cd91000022227 | ||
| 80 SR | NxK_2_80SR.txt.gz | 1443538d55b1a36a3cfe579e5403f424 | |
| N x K (3) | 80 PE | NxK_3_F.txt.gz | 992d1b2fcfd4d458a9800845987a53ee |
| NxK_3_R.txt.gz | b29eb33fb7d7eabeb8a4033437063a02 | ||
| K x N (1) | 80 PE | KxN_1_F.txt.gz | 13c2aa8bbda896dd89ba9e10728c07f2 |
| KxN_1_R.txt.gz | a51ddb07582428b9848636f6897c35bc | ||
| K x N (2) | 80 PE | KxN_2_F.txt.gz | 639c5f0ba6422a6f024611ca4e27a759 |
| KxN_2_R.txt.gz | ea7259da149b61f72ca6f1a3c04d3a0c | ||
| KxN_2_F_BGI-5.txt.gz | 45f8dcd3755479868bfcca1b32b675d0 | ||
| KxN_2_R_BGI-5.txt.gz | f3cbf6e09adf2d4f5f965ea27d172307 | ||
| KxN_2_F_BGI-6.txt.gz | 45fa9cfb80d91b50f5ab48fb95d9b838 | ||
| KxN_2_R_BGI-6.txt.gz | 74d03ffca6a6ca4f7dbd6176e5767bd1 | ||
| K x N (3) | 80 SR | KxN_3_80SR.txt.gz | 59ab00827243e0a8838d771d23cc7d00 |
| N x p (1) | 80 PE | Nxp_1_F.txt.gz | a21f92c8e78f5a18ed190f2b8cb907c4 |
| Nxp_1_R.txt.gz | 9f38f71c05452347459abdfa56b89419 | ||
| Nxp_1_F_BGI-5.txt.gz | e8193b923f0844425715389b7829a9ff | ||
| Nxp_1_R_BGI-5.txt.gz | b04b4f70d043c71ed9f3b12ccb9727e7 | ||
| Nxp_1_F_BGI-6.txt.gz | 0a1889bd1e9b143d52bd6e6000bab525 | ||
| Nxp_1_R_BGI-6.txt.gz | e85f110fa04597e9ec37bdc84d8d54f2 | ||
| N x p (2) | 80 PE | Nxp_2_F.txt.gz | e0929bf7e3485b7b3df05b363c1823e1 |
| Nxp_2_R.txt.gz | 1a4fe53e1a2756492ab5e4c5bf9a727d | ||
| N x p (3) | 80 PE | Nxp_3_F.txt.gz | 3994804f53dc0ddefe56794b9d10e556 |
| Nxp_3_R.txt.gz | 0a2330f207de7d8dfc6ec3b733189cec | ||
| 93-11 (1) | 80 PE | 93-11_1_F.txt.gz | 53f2fabeedc6b9910eb47552f8f2651c |
| 93-11_1_R.txt.gz | e9f0e120292b838210846413c6ccd002 | ||
| 93-11 (2) | 80 PE | 93-11_2_F.txt.gz | 14b10279bbe5c3e8efd8fadca20facb4 |
| 93-11_2_R.txt.gz | 02029ad010efdabdcb92b938e0f6063b | ||
| 93-11_2_F_BGI-5.txt.gz | d9c43c732d4bd983d82a01b80d8b953f | ||
| 93-11_2_R_BGI-5.txt.gz | c28c054d6302b6513fb23045e2161ea5 | ||
| 93-11_2_F_BGI-6.txt.gz | aa43e3ff1385addc66879cdd30462d37 | ||
| 93-11_2_R_BGI-6.txt.gz | 555a4d4b80fae572e23b6022a619ae18 | ||
| 93-11 (3) | 80 PE | 93-11_3_F.txt.gz | b4937aa8620fa26380a450230f29e82c |
| 93-11_3_R.txt.gz | 6c60a864bd9e730df93b78fbecff167e | ||
| 93-11_3_F_BGI-5.txt.gz | 8ddbdb53ec675aa44eb2bb307bf0a8b9 | ||
| 93-11_3_R_BGI-5.txt.gz | 3afe14e532220932344c9f463e76e7c4 | ||
| 93-11_3_F_BGI-6.txt.gz | 045f961196744cecc169006d71611628 | ||
| 93-11_3_R_BGI-6.txt.gz | bf68d1a782e966a493b844fe93f8aecc | ||
| N x 93-11 (1) | 80 PE | Nx93-11_1_F.txt.gz | 825382b1e1b097cf9eb880caecd9404f |
| Nx93-11_1_R.txt.gz | ea79768b07c1a5754ba34f60025e21de | ||
| Nx93-11_1_F_BGI-5.txt.gz | 269974f0093d54186f622bd87a8dab59 | ||
| Nx93-11_1_R_BGI-5.txt.gz | cb36950e03d900a724750db797fc5572 | ||
| Nx93-11_1_F_BGI-6.txt.gz | e8bf7ba850db325631f8e7ec3da70560 | ||
| Nx93-11_1_R_BGI-6.txt.gz | 4658b98112033097cc937f0b28d5c6c0 | ||
| N x 93-11 (2) | 80 PE | Nx93-11_2_F.txt.gz | bc9e81e140d3299df5e137880ecddddf |
| Nx93-11_2_R.txt.gz | 47ff85e63543bf96fab933930477b9f7 | ||
| N x 93-11 (3) | 80 PE | Nx93-11_3_F.txt.gz | dcdd6c74ca8748b7b511cac78d7d9ec9 |
| Nx93-11_3_R.txt.gz | 3516c0f7bcdb277fc9af32094e35e5e8 | ||
| Nx93-11_3_F_BGI-5.txt.gz | 90b1b2dcdc849593609f59671b5517f1 | ||
| Nx93-11_3_R_BGI-5.txt.gz | ff5959e7ed942ccb35a527393e92381a | ||
| Nx93-11_3_F_BGI-6.txt.gz | b44fd87fd7adae135961adf0484cfe53 | ||
| Nx93-11_3_R_BGI-6.txt.gz | f526cdab89957de37da416de86201c96 | ||
| 93-11 x N (1) | 80 PE | 93-11xN_1_F.txt.gz | beeb64e1df384cfe85533af3ec301966 |
| 93-11xN_1_R.txt.gz | b5f69853af71d6914dd61bdc1a7aba45 | ||
| 93-11 x N (2) | 80 PE | 93-11xN_2_F.txt.gz | 4d544f6d95f885e7fe0203189d170097 |
| 93-11xN_2_R.txt.gz | 550352ac0a7cccd5f455d8bf809ff0c7 | ||
| 93-11xN_2_F_BGI-5.txt.gz | f2a0f40f3e98d965eb8bb0b51bb0f937 | ||
| 93-11xN_2_R_BGI-5.txt.gz | 14efee49b01b16931d336fd8372032f8 | ||
| 93-11xN_2_F_BGI-6.txt.gz | 876f03b3b712a92b7e2690893756b1a5 | ||
| 93-11xN_2_R_BGI-6.txt.gz | cc1f30c4753aada043b369923369bdff | ||
| 93-11 x N (3) | 80 PE | 93-11xN_3_F.txt.gz | 9da2b6d373fcd18419060718652d08f0 |
| 93-11xN_3_R.txt.gz | b7306ab702333cfd491acbf5652544cc | ||
| K x 93-11 (1) | 80 PE | Kx93-11_1A_F.txt.gz | 291eb559354eacb1bd00dbe3888e896c |
| Kx93-11_1A_R.txt.gz | bb955fe33269a0fdbcc38d6958c8d1c5 | ||
| Kx93-11_1B_F.txt.gz | 7744eed9d364f485d781eecda32eb0d3 | ||
| Kx93-11_1B_R.txt.gz | 2fef7b429f43b62af29abdae4dc9c241 | ||
| K x 93-11 (2) | 80 PE | Kx93-11_2A_F.txt.gz | c9f815c3e1944f8bd37c0dc4a9aa7242 |
| Kx93-11_2A_R.txt.gz | 20f9a82e19d3dbf9248b535b210ce9da | ||
| Kx93-11_2B_F.txt.gz | 8eb6be772ab90681d66c43b953fb9066 | ||
| Kx93-11_2B_R.txt.gz | 5bc3d9e0985780fe0ab52cbf0df6aae1 | ||
| Kx93-11_2A_F_BGI-5.txt.gz | 278ebc6b323ef4152ae3166cda05d27a | ||
| Kx93-11_2A_R_BGI-5.txt.gz | e6f7b04cf847d30a94f30e6f989a4507 | ||
| Kx93-11_2A_F_BGI-6.txt.gz | 583d5697a9866acd36afa5e192bb87d3 | ||
| Kx93-11_2A_R_BGI-6.txt.gz | 86ec1a7980b4f71859f7f511746b1f59 | ||
| K x 93-11 (3) | 80 PE | Kx93-11_3A_F.txt.gz | cbde0a56303a168ad810d39dbbe31b3f |
| Kx93-11_3A_R.txt.gz | 59b6bec10105199fd531d5cd680f67d4 | ||
| Kx93-11_3B_F.txt.gz | 39a730f3ec2992916436371075bf707b | ||
| Kx93-11_3B_R.txt.gz | 4beb95662ca48278c6b660fcf3a3cc02 | ||
| 93-11 x K (1) | 80 PE | 99-11xK_1A_F.txt.gz | 75b53f4cd2bb3139b272d7e59bf9db8e |
| 99-11xK_1A_R.txt.gz | ec67326f0cea7ed0bd4e5c3fa903184d | ||
| 99-11xK_1B_F.txt.gz | 4cf280f9d8e1f5c7f75635153acf9867 | ||
| 99-11xK_1B_R.txt.gz | a1729f9409e4d3a42ab0720125fc40a9 | ||
| 93-11 x K (2) | 80 PE | 93-11xK_2A_F.txt.gz | b8b0a9d31f5ee9a8b6af3e04da00b6fa |
| 93-11xK_2A_R.txt.gz | 90b8517d40c15e5a17149ec4278d62c8 | ||
| 93-11xK_2B_F.txt.gz | d976e5e3e1d93fe6695e0d20a89c5e02 | ||
| 93-11xK_2B_R.txt.gz | aa038ec37678c9f862683ec5e5f56dc1 | ||
| 93-11 x K (3) | 80 PE | 93-11xK_3A_F.txt.gz | 322579e0dd2d03088839ad7fd40976c0 |
| 93-11xK_3A_R.txt.gz | 4806316744f914a1a1f97778eb2da2d5 | ||
| 93-11xK_3B_F.txt.gz | 42d75ae30520edc617e345f67cbbbc7e | ||
| 93-11xK_3B_R.txt.gz | 57a2473dd55fd01e6ad6dbcbc7a8f4cb |
Comai Lab 