Line 99: | Line 99: | ||
! Assembly | ! Assembly | ||
! Gene number | ! Gene number | ||
− | ! | + | ! lncRNAs |
! High confidence | ! High confidence | ||
+ | ! Low confidence | ||
! Repetitive elements | ! Repetitive elements | ||
! miRNA precursors | ! miRNA precursors | ||
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{{!}} {{{stats.transcripts}}} | {{!}} {{{stats.transcripts}}} | ||
{{!}} {{{stats.high_confidence}}} | {{!}} {{{stats.high_confidence}}} | ||
+ | {{!}} {{{stats.low_confidence}}} | ||
{{!}} {{{stats.transposons}}} | {{!}} {{{stats.transposons}}} | ||
{{!}} {{{stats.mirna}}} | {{!}} {{{stats.mirna}}} |
Long non-coding RNAs (lncRNAs) are functional non-translated molecules longer than 200 nucleotides with diverse roles, such as chromatin modifications, transcriptional regulation, and conformational changes in proteins. The Green Non-Coding Database (GreeNC) is a repository of lncRNAs annotated in 37 plant species and 5 algae. By using the same pipeline to annotate lncRNAs and organizing them in a central database we aim to provide a tool for the scientific community that can boost the research on this class of transcripts. The GreeNC database provides information about sequence, genomic coordinates, coding potential and folding energy for all the identified lncRNAs.
All the news …
Species | Assembly | Gene number | lncRNAs | High confidence | Low confidence | Repetitive elements | miRNA precursors
|
---|---|---|---|---|---|---|---|
Amborella_trichopoda | v1.0 | 5698 | 5698 | 4156 | 1542 | 103 | 347 |
Ananas_comosus | v3 | 3376 | 3376 | 1674 | 1702 | 163 | 935 |
Arabidopsis_lyrata | v1.0 | 4363 | 4363 | 2622 | 1741 | 158 | 60 |
Arabidopsis_thaliana | TAIR10 | 2752 | 3008 | 1720 | 1288 | 1018 | 63 |
Brachypodium_distachyon | v3.1 | 4828 | 5584 | 3648 | 1936 | 870 | 1024 |
Capsella_grandiflora | v1.1 | 1338 | 1394 | 1013 | 381 | 90 | 27 |
Capsella_rubella | v1.0 | 1395 | 1458 | 1069 | 389 | 100 | 20 |
Carica_papaya | ASGPBv0.4 | 3986 | 3987 | 2439 | 1548 | 980 | 181 |
Chlamydomonas_reinhardtii | v5.5 | 583 | 619 | 135 | 484 | 217 | 450 |
Citrus_clementina | v1.0 | 2056 | 2192 | 1553 | 639 | 149 | 34 |
Citrus_sinensis | v1.1 | 2344 | 2562 | 1788 | 774 | 171 | 42 |
Coccomyxa_subellipsoidea_C-169 | v2.0 | 668 | 668 | 469 | 199 | 33 | 92 |
Cucumis_sativus | v1.0 | 1817 | 1929 | 1390 | 539 | 152 | 32 |
Eucalyptus_grandis | v2.0 | 4499 | 4639 | 3629 | 1010 | 204 | 103 |
Eutrema_salsugineum | v1.0 | 1588 | 1669 | 1238 | 431 | 85 | 25 |
Fragaria_vesca | v1.1 | 3503 | 3503 | 2412 | 1091 | 728 | 133 |
Glycine_max | Wm82.a2.v1 | 5974 | 6689 | 4749 | 1940 | 832 | 133 |
Gossypium_raimondii | v2.1 | 3520 | 4216 | 3037 | 1179 | 256 | 55 |
Linum_usitatissimum | v1.0 | 2598 | 2598 | 1955 | 643 | 37 | 46 |
Malus_domestica | v1.0 | 4126 | 4126 | 2565 | 1561 | 688 | 83 |
Manihot_esculenta | v6.1 | 3137 | 3468 | 2660 | 808 | 266 | 90 |
Medicago_truncatula | Mt4.0v1 | 9373 | 9676 | 5793 | 3883 | 2567 | 286 |
Micromonas_pusilla_CCMP1545 | v3.0 | 651 | 651 | 230 | 421 | 19 | 300 |
Micromonas_pusilla_RCC299 | v3.0 | 351 | 351 | 199 | 152 | 6 | 48 |
Mimulus_guttatus | v2.0 | 2169 | 2333 | 1591 | 742 | 186 | 59 |
Musa_acuminata | v1 | 4071 | 4071 | 2525 | 1546 | 170 | 90 |
Oryza_sativa_Japonica_Group | v7.0 | 4995 | 5237 | 3601 | 1636 | 1148 | 119 |
Ostreococcus_lucimarinus | v2.0 | 501 | 501 | 209 | 292 | 9 | 128 |
Phaseolus_vulgaris | v1.0 | 1838 | 1946 | 1450 | 496 | 152 | 30 |
Physcomitrella_patens | v3.3 | 6888 | 9690 | 8390 | 1300 | 907 | 299 |
Populus_trichocarpa | v3.0 | 4997 | 5569 | 4111 | 1458 | 434 | 124 |
Prunus_persica | v2.1 | 2803 | 3301 | 2216 | 1085 | 526 | 85 |
Ricinus_communis | v0.1 | 4198 | 4198 | 3127 | 1071 | 174 | 215 |
Selaginella_moellendorffii | v1.0 | 906 | 906 | 409 | 497 | 28 | 26 |
Setaria_italica | v2.2 | 3240 | 3492 | 2159 | 1333 | 507 | 669 |
Solanum_lycopersicum | ITAG2.4 | 3440 | 3440 | 2448 | 992 | 423 | 60 |
Solanum_tuberosum | v3.4 | 5974 | 6680 | 2976 | 3704 | 2682 | 184 |
Sorghum_bicolor | v3.1 | 4624 | 5305 | 2682 | 2623 | 1737 | 1057 |
Spirodela_polyrhiza | v2 | 2111 | 2111 | 1536 | 575 | 86 | 174 |
Theobroma_cacao | v1.1 | 4137 | 4268 | 3306 | 962 | 461 | 59 |
Triticum_aestivum | v2.2 | 23359 | 38820 | 21132 | 17688 | 5714 | 1039 |
Vitis_vinifera | Genoscope.12X | 2526 | 2526 | 1624 | 902 | 296 | 23 |
Volvox_carteri | v2.1 | 1097 | 1134 | 592 | 542 | 222 | 371 |
Zea_mays | 6a | 16857 | 18110 | 10229 | 7881 | 4004 | 2192 |
Zostera_marina | v2.2 | 1393 | 1393 | 1014 | 379 | 55 | 23 |