Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00009 ATGGGCCCCGAAGAAGCCGAACGTTTTTGGTCTGCCTTTGTTTTATATTCTGTGAAGAGGCTGAGAGATAAGAACTCAGAGAGTTCACATCAGGGATCTGAGAACAACAGCTTCACTTTATGCCACATATTGAGAATTTGCAAGCTGAACATTGTAGAATTTTTTAAAGAGCTGCCTCAGTTTGTTGTTAAAGCTGGTCCAGTATTAAGTAATCTCTATGGTGCAGACTGGGAGAATAGACTAGAGGCAAAGGAGTTGCAAGCTAACTTCGTGCATTTGAGCCTCTTAAGCAAGTATTATAAGCGTGTCTACCGAGAGTTCTTCTCCACCAATGATGCTAATGTTGAAAAGCAGTCAGCTATATCCTGCCCTGCTGTTGCTTACCGTGTTTATATTTGTCCAGTTAAGAAAGGTGTAAAAGGAGTGGATCTGCTTGGATCACTTTGTAATGTCTATGACACCTCAGAGGAAGAACTGAGGGAAGTCATGGAGAAGGCAAATAGTTTGATAGAAGATATTTTGAAGAAGAAGCCTCGTTTGGCTTCTGAGTGTAACAGTAAAAGCCTGGAGAATATTGACACTGGGGGTTTGATATACTTTGAAGGCTTAATGGAGAAATCATCTCTTTCATCCAGTTTAGAAATTCTTGAAAAGGACTATGAAGATGCAATTCGTAATAAAGGTGAGCTTGATGAGCGAGTATTTGTTAATGACGAGGACAGTTTACTTGGGTCGGGTAGCTTGTCAGCAGGTGCTGTTACAATGGGTGGCATCAAGAGGAAGTTTGACTCAATGTGCTCACCTGCAAGGACAATAACCAGTTCAATGTCTCCAATTTGCTCTCCTGCTTCGCATGCCAATGCCACTCTTAATAGTGGTAACGCCAAACTTGCTGCCACGCCTGTTAGCACAGCCATGACAACGGCAAAGTGGCTCAGAACTGTTATTTCCCCACTTCCAGCGAAACCTTCAGCAGAAATGGAGCGCTTTTTGGCTTCATGTGATAGGGATGTAACTAATGATGTAGTCCACAGGGCGCATATTATACTGGAGGCCATATTTCCAAATAGTGCTCTAGGAGAGCGCTGTGTAGCTGGAAATTTTCAAAGTGCAAATCTCATGGATAATATCTGGGCAGAACAGCGACGACTAGAAGCATTGAAGTTATACTATAGAGTTCTGGAAGCAATGTGCAGAGCAGAGTCTCAGATGCTGCATGTGACTAATTTGACCTCTTTGCTGACTAATGAGAGGTTCCACAGATGTATGCTGGCTTGTTCTGCTGAATTGGTTTTGGCAACTCATAAAACTGTTACAATGTTGTTTCCTGCAGTATTGGAAAGAACTGGTATAACAGCTTTTGACCTTAGTAAGGTGATAGAAAGTTTCATCAGACATGAAGAATCACTTCCTAGAGAATTGAGGCGACATCTTAATTCTTTGGAAGAACGGCTATTAGAGAGCATGGTATGGGAAAAAGGTTCATCAATGTATAACTCCCTGATTGTTGCTAAACCTGCCCTTGCTGCAGAAATTAATCGTCTGGGTTTATTAGCTGAACCCATGCCATCTTTGGATGCCATTGCTGTACAAATTAACTTTTCTGGTATTGGGGTATCAACCATGCCTAATTTGCAAAAGCATGAGAGTTTTCCAGGTCAGAATGGGGATATAAGGTCACCCAAAAGATTGTGCACAGATTTAAGAAGTGTGCTAGTGGAACGGAATTCCTTTACTTCTCCAGTGAAGGACCGACTCATGGCTTTCAGTAGTATTAAGTCTAAGCTTCTGCCCCCTCCTTTACAGTCGGCTTTTGCAAGTCCTACTCGGCCTAACCCTGGAGGTGGTGGAGAAACGTGTGCTGAAACTGGAATTAACATTTTCTTTAGCAAGATCATCAAGTTGGCTGCTGTAAGAGTCAACGGTATGGTGGAAAGATTGCAGTTATCCCATCAGATCAGGGAGAATGTCTACTGCCTTTTCCAACAGATACTCAGTCAAAAGACATCACTATTATTTAATCGTCACATCGACCAGACCATCCTATGTTGTTTCTATGGCGTTGCAAAGATATCTCAATTGAGCCTCACGTTTAGGGAAATCATATACAACTACAGGAAGCAACCACAATGTAAACCACAAGTCTTCCGCAATGTGTTTGTTGACTGGTCTTCAGCACGTCGTAATGGGAGATCAGGACAGGATCATGTGGATATAATTACCTTCTACAATGAAATATTTATTCCTTCTGTAAAACCTTTGCTTGTTGAGATTGGCCCGACTGGATCAACCATGAAAACTGACAGGGTTCCTCAAGTCAACAACAACAGCGATGCACCGTGTCCTGGATCACCTAAGATATCTCCTTTTCCAAGCCTTCCCGATATGTCTCCAAAGAAAGTATCTTCAGCACATAATGTCTACGTCTCTCCATTAAGTACGCGGAAACTCCGGGGCACACTAAATTTTGACGACGCGGACGTTGGTTTAGTCAGTGATTCCCTGGTGGCCAACAGCCTTTACCTACAAAATGGAAGTTGTGGATCATCTTCAGCTGTGATAATCTTATTACGGGTTACAAGCAAATGTGCCAATGATTTAGGCAAGATGATTCGGACTATGGACATTGCACTGATGCCTTCCACGTCTTGA 2652 42.53 MGPEEAERFWSAFVLYSVKRLRDKNSESSHQGSENNSFTLCHILRICKLNIVEFFKELPQFVVKAGPVLSNLYGADWENRLEAKELQANFVHLSLLSKYYKRVYREFFSTNDANVEKQSAISCPAVAYRVYICPVKKGVKGVDLLGSLCNVYDTSEEELREVMEKANSLIEDILKKKPRLASECNSKSLENIDTGGLIYFEGLMEKSSLSSSLEILEKDYEDAIRNKGELDERVFVNDEDSLLGSGSLSAGAVTMGGIKRKFDSMCSPARTITSSMSPICSPASHANATLNSGNAKLAATPVSTAMTTAKWLRTVISPLPAKPSAEMERFLASCDRDVTNDVVHRAHIILEAIFPNSALGERCVAGNFQSANLMDNIWAEQRRLEALKLYYRVLEAMCRAESQMLHVTNLTSLLTNERFHRCMLACSAELVLATHKTVTMLFPAVLERTGITAFDLSKVIESFIRHEESLPRELRRHLNSLEERLLESMVWEKGSSMYNSLIVAKPALAAEINRLGLLAEPMPSLDAIAVQINFSGIGVSTMPNLQKHESFPGQNGDIRSPKRLCTDLRSVLVERNSFTSPVKDRLMAFSSIKSKLLPPPLQSAFASPTRPNPGGGGETCAETGINIFFSKIIKLAAVRVNGMVERLQLSHQIRENVYCLFQQILSQKTSLLFNRHIDQTILCCFYGVAKISQLSLTFREIIYNYRKQPQCKPQVFRNVFVDWSSARRNGRSGQDHVDIITFYNEIFIPSVKPLLVEIGPTGSTMKTDRVPQVNNNSDAPCPGSPKISPFPSLPDMSPKKVSSAHNVYVSPLSTRKLRGTLNFDDADVGLVSDSLVANSLYLQNGSCGSSSAVIILLRVTSKCANDLGKMIRTMDIALMPSTS 883
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 144056 153011 + Lsi04G000090.1 Lsi04g00009 660058

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00009 883 Coils Coil 152 176 - -
Lsi04g00009 883 MobiDBLite consensus disorder prediction 766 798 - -
Lsi04g00009 883 Gene3D - 303 491 - -
Lsi04g00009 883 SMART DUF3452_2 21 154 IPR024599 -
Lsi04g00009 883 PANTHER RETINOBLASTOMA-ASSOCIATED PROTEIN RB -RELATED 4 123 IPR028309 GO:0006357|GO:0051726
Lsi04g00009 883 SMART RB_A_2 300 501 IPR002720 GO:0005634|GO:0051726
Lsi04g00009 883 Pfam Retinoblastoma-associated protein A domain 300 501 IPR002720 GO:0005634|GO:0051726
Lsi04g00009 883 SUPERFAMILY Cyclin-like 623 792 IPR036915 -
Lsi04g00009 883 Coils Coil 206 233 - -
Lsi04g00009 883 Pfam Domain of unknown function (DUF3452) 31 125 IPR024599 -
Lsi04g00009 883 PANTHER RETINOBLASTOMA-ASSOCIATED PROTEIN RB -RELATED 135 817 IPR028309 GO:0006357|GO:0051726
Lsi04g00009 883 MobiDBLite consensus disorder prediction 766 782 - -
Lsi04g00009 883 Gene3D - 585 778 - -
Lsi04g00009 883 SUPERFAMILY Cyclin-like 308 503 IPR036915 -
Lsi04g00009 883 Pfam Retinoblastoma-associated protein B domain 625 752 IPR002719 GO:0005634|GO:0051726
Lsi04g00009 883 PANTHER BNACNNG22930D PROTEIN 4 123 - -
Lsi04g00009 883 PANTHER BNACNNG22930D PROTEIN 135 817 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00009 K04681 RBL1; retinoblastoma-like protein 1 - csv:101219810 1537.32
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi04g00138 . 12 314 Core Cell Cycle Gene Families AT3G48750 82.8 6.1e-148 520.4
Lsi04g02422 . 11 320 Core Cell Cycle Gene Families AT3G48750 51.1 1.2e-90 330.1
Lsi11g00111 . 1421 1584 Core Cell Cycle Gene Families AT3G48750 51.8 3.2e-48 189.1
Lsi01g01645 . 658 1027 Core Cell Cycle Gene Families AT3G54180 68.7 1.0e-137 486.5
Lsi04g02422 . 11 322 Core Cell Cycle Gene Families AT3G54180 63.6 4.2e-115 411.4
Lsi04g00138 . 14 310 Core Cell Cycle Gene Families AT3G54180 52.9 7.9e-90 327.4
Lsi11g00111 . 1422 1585 Core Cell Cycle Gene Families AT3G54180 63.5 6.8e-57 218.0
Lsi01g01645 . 658 1027 Core Cell Cycle Gene Families AT2G38620 57.8 1.5e-107 386.0
Lsi04g02422 . 11 322 Core Cell Cycle Gene Families AT2G38620 55.1 2.2e-90 328.9
Lsi11g00111 . 1467 1585 Core Cell Cycle Gene Families AT2G38620 73.1 8.5e-50 194.1
Lsi04g02422 . 1 320 Core Cell Cycle Gene Families AT1G76540 81.3 2.3e-153 538.5
Lsi01g01645 . 656 1022 Core Cell Cycle Gene Families AT1G76540 53.1 3.7e-103 371.7
Lsi04g00138 . 1 310 Core Cell Cycle Gene Families AT1G76540 50.9 8.6e-92 334.0
Lsi11g00111 . 1398 1585 Core Cell Cycle Gene Families AT1G76540 72.3 3.1e-73 272.3
Lsi04g02422 . 8 320 Core Cell Cycle Gene Families AT1G20930 85.3 7.7e-157 550.1
Lsi01g01645 . 656 1025 Core Cell Cycle Gene Families AT1G20930 54.2 6.2e-106 380.9
Lsi04g00138 . 12 310 Core Cell Cycle Gene Families AT1G20930 53.4 1.2e-93 340.1
Lsi11g00111 . 1426 1585 Core Cell Cycle Gene Families AT1G20930 81.3 2.1e-74 276.2
Lsi10g00941 . 1 504 Core Cell Cycle Gene Families AT5G10270 72.9 9.9e-207 716.5
Lsi03g01376 . 1 409 Core Cell Cycle Gene Families AT5G10270 62.7 1.3e-158 556.6
Lsi05g00144 . 123 439 Core Cell Cycle Gene Families AT5G10270 54.7 1.3e-97 354.0
Lsi05g01501 . 105 421 Core Cell Cycle Gene Families AT5G10270 52.9 3.8e-97 352.4
Lsi02g00524 . 93 409 Core Cell Cycle Gene Families AT5G10270 53.2 8.4e-97 351.3
Lsi08g00053 . 137 453 Core Cell Cycle Gene Families AT5G10270 52.7 7.1e-96 348.2
Lsi11g00052 . 149 465 Core Cell Cycle Gene Families AT5G10270 52.1 1.2e-95 347.4
Lsi11g00478 CCT,ECH 736 1054 Core Cell Cycle Gene Families AT5G10270 51.3 7.8e-95 344.7
Lsi02g00092 . 119 437 Core Cell Cycle Gene Families AT5G10270 50.4 1.1e-91 334.3
Lsi10g00900 . 124 338 Core Cell Cycle Gene Families AT5G10270 55.5 2.8e-68 256.5
Lsi10g00941 . 65 503 Core Cell Cycle Gene Families AT5G64960 72.5 3.6e-171 598.2
Lsi03g01376 . 65 462 Core Cell Cycle Gene Families AT5G64960 56.6 6.9e-122 434.5
Lsi05g00144 . 177 439 Core Cell Cycle Gene Families AT5G64960 54.3 1.2e-81 300.8
Lsi02g00524 . 147 409 Core Cell Cycle Gene Families AT5G64960 52.9 3.4e-81 299.3
Lsi11g00052 . 203 465 Core Cell Cycle Gene Families AT5G64960 52.9 2.2e-80 296.6
Lsi05g01501 . 159 421 Core Cell Cycle Gene Families AT5G64960 51.8 3.8e-80 295.8
Lsi08g00053 . 191 453 Core Cell Cycle Gene Families AT5G64960 52.9 4.2e-79 292.4
Lsi10g00900 . 829 1102 Core Cell Cycle Gene Families AT5G64960 51.6 7.2e-79 291.6
Lsi06g01303 . 4 398 Core Cell Cycle Gene Families AT1G73690 72.9 9.0e-163 570.1
Lsi06g01303 . 12 342 Core Cell Cycle Gene Families AT1G66750 77.7 2.1e-155 545.4
Lsi06g01303 . 8 398 Core Cell Cycle Gene Families AT1G18040 74.4 1.4e-163 572.8
Lsi01g01935 . 29 234 Core Cell Cycle Gene Families AT5G63610 87.9 3.1e-101 365.9
Lsi01g01934 . 1 154 Core Cell Cycle Gene Families AT5G63610 60.9 4.6e-41 166.0
Lsi11g00250 CCT 237 749 Core Cell Cycle Gene Families AT4G28980 58.7 2.0e-169 592.4
Lsi08g00456 . 5 499 Core Cell Cycle Gene Families AT1G44110 60.8 7.5e-153 537.3
Lsi08g01152 . 195 463 Core Cell Cycle Gene Families AT1G44110 50.9 2.1e-70 263.5
Lsi08g01152 . 70 475 Core Cell Cycle Gene Families AT5G25380 51.9 1.8e-95 346.7
Lsi08g00456 . 217 492 Core Cell Cycle Gene Families AT5G25380 55.4 3.3e-81 299.3
Lsi02g02759 . 223 469 Core Cell Cycle Gene Families AT5G25380 52.0 2.7e-75 279.6
Lsi04g01508 CCT,ECH 232 479 Core Cell Cycle Gene Families AT5G25380 52.0 1.6e-67 253.8
Lsi08g01152 . 188 413 Core Cell Cycle Gene Families AT5G11300 64.6 5.8e-72 268.5
Lsi08g00456 . 208 437 Core Cell Cycle Gene Families AT5G11300 56.5 4.6e-69 258.8
Lsi04g01508 CCT,ECH 231 423 Core Cell Cycle Gene Families AT5G11300 55.4 4.6e-53 205.7
Lsi03g00554 . 119 285 Core Cell Cycle Gene Families AT5G11300 53.6 1.0e-44 177.9
Lsi02g02759 . 189 469 Core Cell Cycle Gene Families AT1G15570 54.7 6.1e-91 331.6
Lsi08g00456 . 218 496 Core Cell Cycle Gene Families AT1G15570 54.1 2.4e-79 293.1
Lsi04g01508 CCT,ECH 228 476 Core Cell Cycle Gene Families AT1G15570 52.6 1.2e-70 264.2
Lsi08g00456 . 218 497 Core Cell Cycle Gene Families AT1G80370 55.4 1.0e-80 297.7
Lsi04g01508 CCT,ECH 231 484 Core Cell Cycle Gene Families AT1G80370 51.6 1.2e-68 257.7
Lsi08g01505 CCT,ECH 5 362 Core Cell Cycle Gene Families AT5G43080 57.7 1.3e-109 393.3
Lsi04g01508 CCT,ECH 231 487 Core Cell Cycle Gene Families AT5G43080 63.4 3.0e-93 339.0
Lsi08g00456 . 219 499 Core Cell Cycle Gene Families AT5G43080 51.2 1.4e-79 293.5
Lsi08g01505 CCT,ECH 1 362 Core Cell Cycle Gene Families AT1G47210 57.2 2.3e-115 412.5
Lsi04g01508 CCT,ECH 226 487 Core Cell Cycle Gene Families AT1G47210 62.2 2.2e-94 342.8
Lsi08g01505 CCT,ECH 78 362 Core Cell Cycle Gene Families AT1G47220 53.9 6.2e-85 311.2
Lsi04g01508 CCT,ECH 226 488 Core Cell Cycle Gene Families AT1G47220 57.4 6.4e-82 301.2
Lsi08g01505 CCT,ECH 1 362 Core Cell Cycle Gene Families AT1G47230 53.9 1.5e-106 383.3
Lsi04g01508 CCT,ECH 230 487 Core Cell Cycle Gene Families AT1G47230 66.0 3.0e-96 349.0
Lsi03g00554 . 66 351 Core Cell Cycle Gene Families AT1G47230 54.5 1.2e-79 293.9
Lsi08g00456 . 220 501 Core Cell Cycle Gene Families AT1G47230 50.2 2.7e-76 282.7
Lsi01g00535 . 170 338 Core Cell Cycle Gene Families AT5G06150 53.8 1.9e-44 176.8
Lsi01g00535 . 171 403 Core Cell Cycle Gene Families AT3G11520 51.1 3.1e-59 226.1
Lsi10g01118 . 114 529 Core Cell Cycle Gene Families AT2G26760 50.1 1.4e-99 360.1
Lsi01g00535 . 8 446 Core Cell Cycle Gene Families AT2G17620 59.9 4.6e-128 454.9
Lsi01g00535 . 5 403 Core Cell Cycle Gene Families AT4G35620 58.2 4.8e-105 378.3
Lsi04g01804 . 1 406 Core Cell Cycle Gene Families AT1G20610 59.2 1.1e-126 450.3
Lsi01g00535 . 1 446 Core Cell Cycle Gene Families AT1G20610 56.9 2.6e-123 439.1
Lsi04g01804 . 1 303 Core Cell Cycle Gene Families AT1G76310 56.8 4.9e-85 311.6
Lsi01g00535 . 1 336 Core Cell Cycle Gene Families AT1G76310 53.5 7.9e-83 304.3
Lsi02g01730 . 1 329 Core Cell Cycle Gene Families AT1G70210 65.0 3.6e-112 401.7
Lsi05g00231 . 5 335 Core Cell Cycle Gene Families AT4G34160 51.3 9.7e-82 300.8
Lsi08g01495 CCT,ECH 47 322 Core Cell Cycle Gene Families AT4G34160 51.2 2.7e-68 256.1
Lsi03g00524 . 61 303 Core Cell Cycle Gene Families AT4G34160 50.6 2.5e-61 233.0
Lsi01g00802 . 56 301 Core Cell Cycle Gene Families AT5G65420 53.4 1.9e-63 239.6
Lsi08g01007 . 65 264 Core Cell Cycle Gene Families AT5G65420 55.9 5.7e-60 228.0
Lsi08g01007 . 60 238 Core Cell Cycle Gene Families AT5G10440 53.9 1.2e-50 196.8
Lsi01g00802 . 54 259 Core Cell Cycle Gene Families AT5G10440 51.7 3.8e-49 191.8
Lsi01g01011 . 24 236 Core Cell Cycle Gene Families AT5G27620 52.7 1.7e-65 246.5
Lsi04g00009 . 4 844 Core Cell Cycle Gene Families AT3G12280 66.7 0.0e+00 1153.3
Lsi02g02376 . 2 490 Core Cell Cycle Gene Families AT1G02970 59.6 5.8e-159 557.8
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0005277 2 1 1 2 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 2 1 1 1 1 2 2 1 40
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25095 PF01858 RB_A 3.70E-64 CL0065 Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00009 Lsi_Chr04 FPKM 16.228327 16.243158 16.426651 16.825739 20.899403 20.645321 21.075317 20.326563 18.791756 20.761559