Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01686 ATGCCTCTGAGAGGCATAATTCGTGAGAAAAGTGAAATACGAGAAGGCAGTGGGAATTCATCGAGGAAAGTGAGGGAGGGAGTTCAAATGCGTCATCTCGGGAAGTCGCATATTGTCCCGGAACAGCCTTCTTCATCTTCTCCGTTACCGATTGAACAGAGCCGTTGGGCGAATTTGCCTCCGGAGCTTCTTTTGGACATAATTCAACGAGTGGAAGCGAGTGAAACCTCTTGGCCTTCTCGCCGGGATGTTGTTACATGTGCTTCAGTTTGCAGGTCATGGCGGATAATTACAAAGGAAGTCGTTAGGACTCCCGAACAGTGTGGGTGGATCACGTTCCCAATTTCTCTGAAGCAGCCCGGACCAAGAGACACTCCGATCCAGTGCTTCATTAAGAGAGAAAGGGCAACTTCAACGTTTCGACTCTATCTCGGGCTAAGCCCTGCCCTGTCGGGTAATCTTAGTAAACTGTTGCTAACTGCAAAAAGAATCCGACGAGCAATGAGTACAGATTTCATTGTATCATTAGTTCCAGACGACTTCTCCCGGGCAAGCAACAATTATTTAGGAAAGTTGAGGTCAAATTTTCTGGGGACCAAGTTTTCAATTTATGACAATCAGCCTCCTCATGACCCAAAATTGCGAACCAGTAGATCAAAAAGAAGAATCCATTTCAAACAGGTTTCTCCAAGTAAAACTCCGACAAACTATAAAGTCGCTGCCGTAGCTTACGAGCTCAATGTCCTCCGCACCAGAGGGCCGAGAAGAATGAGGTGCACCATGCATTCAATACCTGTTGCAGCCGTGGAGGAGGGTGGCACTGCCCCAACTCCAACCGAGTTCAAAGACTGTAAAAGTGAGCATCATTCATCTACATCGATTTCCAAAGGAAAGAAGCCGATAACCGGGTCCCCTGAGCCTCAGGAACCGATAGCTCCATTGGTATTAAAGAACAAAGCTCCGAGATGGCATGAGCAACTTCAATGTTGGTGCTTGAACTTCAAAGGGCGTGTCACGGTCGCCTCGGTGAAGAACTTCCAGCTGGTTGCTGCCGCAGAGACGAGTCAAAACGTATCTGCAGCTGAACAAGAAAGAGTGATTTTGCAGTTTGGTAAGATTGGGAAGGATATTTTCACGATGGATTATCGCTATCCTCTCTCAGCTTTCCAAGCCTTTGCAATTTGTCTTAGTAGCTTTGATACCAAGCCAGCCTGTGAATGA 1221 47.09 MPLRGIIREKSEIREGSGNSSRKVREGVQMRHLGKSHIVPEQPSSSSPLPIEQSRWANLPPELLLDIIQRVEASETSWPSRRDVVTCASVCRSWRIITKEVVRTPEQCGWITFPISLKQPGPRDTPIQCFIKRERATSTFRLYLGLSPALSGNLSKLLLTAKRIRRAMSTDFIVSLVPDDFSRASNNYLGKLRSNFLGTKFSIYDNQPPHDPKLRTSRSKRRIHFKQVSPSKTPTNYKVAAVAYELNVLRTRGPRRMRCTMHSIPVAAVEEGGTAPTPTEFKDCKSEHHSSTSISKGKKPITGSPEPQEPIAPLVLKNKAPRWHEQLQCWCLNFKGRVTVASVKNFQLVAAAETSQNVSAAEQERVILQFGKIGKDIFTMDYRYPLSAFQAFAICLSSFDTKPACE 406
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 24240314 24243985 - Lsi04G016860.1 Lsi04g01686 661735

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01686 406 SUPERFAMILY Tubby C-terminal domain-like 105 406 IPR025659 -
Lsi04g01686 406 SUPERFAMILY F-box domain 50 99 IPR036047 GO:0005515
Lsi04g01686 406 MobiDBLite consensus disorder prediction 280 309 - -
Lsi04g01686 406 Gene3D - 51 104 - -
Lsi04g01686 406 ProSitePatterns Tub family signature 2. 391 406 IPR018066 -
Lsi04g01686 406 PRINTS Tubby superfamily signature 236 263 IPR000007 -
Lsi04g01686 406 PRINTS Tubby superfamily signature 172 188 IPR000007 -
Lsi04g01686 406 PRINTS Tubby superfamily signature 384 406 IPR000007 -
Lsi04g01686 406 PRINTS Tubby superfamily signature 188 212 IPR000007 -
Lsi04g01686 406 PRINTS Tubby superfamily signature 363 382 IPR000007 -
Lsi04g01686 406 PRINTS Tubby superfamily signature 334 350 IPR000007 -
Lsi04g01686 406 PRINTS Tubby superfamily signature 316 333 IPR000007 -
Lsi04g01686 406 PANTHER TUBBY-LIKE F-BOX PROTEIN 1 406 - -
Lsi04g01686 406 PANTHER TUBBY-RELATED 1 406 - -
Lsi04g01686 406 ProSitePatterns Tub family signature 1. 334 347 IPR018066 -
Lsi04g01686 406 Pfam F-box domain 56 103 IPR001810 GO:0005515
Lsi04g01686 406 Gene3D Tubby Protein; Chain A 114 406 IPR025659 -
Lsi04g01686 406 Pfam Tub family 117 401 IPR000007 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01686 K19600 TUB, TULP; tubby and related proteins - csv:101222500 759.599
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01686 Lsi-Chr4:24240314 Lsi05g00201 Lsi-Chr5:2777209 3.42E-152 dispersed
Lsi07g00877 Lsi-Chr7:9959232 Lsi04g01686 Lsi-Chr4:24240314 1.40E-128 transposed
Lsi08g00296 Lsi-Chr8:7776228 Lsi04g01686 Lsi-Chr4:24240314 1.50E-152 transposed
Lsi08g00555 Lsi-Chr8:13741039 Lsi04g01686 Lsi-Chr4:24240314 1.00E-153 transposed
Lsi01g00669 Lsi-Chr1:5398418 Lsi04g01686 Lsi-Chr4:24240314 8.56E-148 wgd
Lsi04g01686 Lsi-Chr4:24240314 Lsi07g00258 Lsi-Chr7:2829163 0 wgd
       

Deco-Alignment

Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi18g960 Blo01g01567 Blo12g00905 Bda01g00525 Bda03g00263 Bpe02g00385 Bpe04g00217 Bma04g00212 . . . Cma01g01916 Cma09g00148 Car01g01497 . . Cpe06g00104 . . . . . . . . . . . . . . . Cone4ag1918 Cone7ag1830 . . Lsi04g01686 Csa03g04225 Chy04g00489 . . . . . . . . . . Cmo01g01979 Cmo09g00146 . . . Car09g00133 . Cpe02g00120 . . . . . . . Cla05g01926 Cam05g2064 Cec05g2076 Cco05g2127 Clacu05g2058 Cmu05g1935 Cre05g2058 . . . Cme04g00548
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi08g00296 . 1 430 TUB Transcription Factor Family AT1G76900 73.6 3.5e-179 624.8
Lsi05g00201 . 1 428 TUB Transcription Factor Family AT1G76900 69.9 2.5e-169 592.0
Lsi08g00555 . 1 432 TUB Transcription Factor Family AT1G76900 69.4 9.7e-169 590.1
Lsi07g00258 CCT,ECH 1 413 TUB Transcription Factor Family AT1G76900 50.7 1.0e-114 410.6
Lsi05g00201 . 174 428 TUB Transcription Factor Family AT1G25280 74.3 7.8e-102 367.1
Lsi08g00296 . 173 430 TUB Transcription Factor Family AT1G25280 68.3 3.5e-94 341.7
Lsi08g00555 . 175 432 TUB Transcription Factor Family AT1G25280 70.4 1.7e-93 339.3
Lsi07g00258 CCT,ECH 177 413 TUB Transcription Factor Family AT1G25280 56.2 3.2e-71 265.4
Lsi04g01686 . 179 406 TUB Transcription Factor Family AT1G25280 54.5 3.7e-67 251.9
Lsi09g01396 CCT,ECH 161 411 TUB Transcription Factor Family AT1G25280 50.5 7.1e-63 237.7
Lsi01g00669 CCT,ECH 155 378 TUB Transcription Factor Family AT1G25280 51.2 4.1e-58 221.9
Lsi09g01396 CCT,ECH 105 411 TUB Transcription Factor Family AT5G18680 59.2 2.3e-94 342.4
Lsi08g00296 . 112 430 TUB Transcription Factor Family AT5G18680 53.3 1.9e-85 312.8
Lsi08g00555 . 112 432 TUB Transcription Factor Family AT5G18680 51.5 1.1e-83 307.0
Lsi05g00201 . 113 428 TUB Transcription Factor Family AT5G18680 52.8 9.0e-83 303.9
Lsi07g00258 CCT,ECH 115 413 TUB Transcription Factor Family AT5G18680 53.0 6.1e-79 291.2
Lsi04g01686 . 115 406 TUB Transcription Factor Family AT5G18680 51.4 2.2e-76 282.7
Lsi05g01499 CCT,ECH 181 461 TUB Transcription Factor Family AT5G18680 54.7 2.5e-72 269.2
Lsi07g00258 CCT,ECH 1 413 TUB Transcription Factor Family AT2G18280 62.3 6.4e-145 510.8
Lsi04g01686 . 1 406 TUB Transcription Factor Family AT2G18280 60.4 2.3e-126 449.1
Lsi05g00201 . 1 428 TUB Transcription Factor Family AT2G18280 52.9 3.6e-119 425.2
Lsi08g00296 . 1 430 TUB Transcription Factor Family AT2G18280 53.2 1.5e-117 419.9
Lsi08g00555 . 1 432 TUB Transcription Factor Family AT2G18280 51.1 5.0e-113 404.8
Lsi09g01396 CCT,ECH 1 411 TUB Transcription Factor Family AT2G18280 50.1 2.6e-106 382.5
Lsi01g00669 CCT,ECH 1 378 TUB Transcription Factor Family AT2G18280 50.2 7.2e-104 374.4
Lsi07g00877 . 53 385 TUB Transcription Factor Family AT2G18280 50.9 4.7e-95 345.1
Lsi09g01396 CCT,ECH 1 411 TUB Transcription Factor Family AT2G47900 65.2 1.2e-154 543.1
Lsi05g01499 CCT,ECH 84 461 TUB Transcription Factor Family AT2G47900 63.1 7.4e-136 480.7
Lsi08g00296 . 1 430 TUB Transcription Factor Family AT2G47900 55.7 1.3e-132 469.9
Lsi05g00201 . 1 428 TUB Transcription Factor Family AT2G47900 56.6 9.3e-131 463.8
Lsi08g00555 . 1 432 TUB Transcription Factor Family AT2G47900 55.7 2.7e-130 462.2
Lsi07g00258 CCT,ECH 1 413 TUB Transcription Factor Family AT2G47900 56.0 5.5e-123 438.0
Lsi04g01686 . 10 406 TUB Transcription Factor Family AT2G47900 55.5 1.0e-116 417.2
Lsi07g00877 . 53 385 TUB Transcription Factor Family AT2G47900 52.2 9.1e-102 367.5
Lsi02g02648 . 82 297 TUB Transcription Factor Family AT1G16070 64.1 4.7e-76 281.6
Lsi08g00296 . 67 430 TUB Transcription Factor Family AT1G43640 71.8 3.0e-149 525.0
Lsi05g00201 . 66 428 TUB Transcription Factor Family AT1G43640 68.0 1.1e-146 516.5
Lsi08g00555 . 65 432 TUB Transcription Factor Family AT1G43640 65.8 1.3e-139 493.0
Lsi04g01686 . 68 406 TUB Transcription Factor Family AT1G43640 50.3 7.6e-100 360.9
Lsi07g00258 CCT,ECH 68 413 TUB Transcription Factor Family AT1G43640 50.1 2.4e-98 355.9
Lsi04g01686 . 34 406 TUB Transcription Factor Family AT1G47270 64.4 9.2e-136 480.3
Lsi07g00258 CCT,ECH 34 413 TUB Transcription Factor Family AT1G47270 58.4 4.0e-123 438.3
Lsi05g00201 . 1 428 TUB Transcription Factor Family AT1G47270 52.1 1.2e-114 410.2
Lsi08g00296 . 30 430 TUB Transcription Factor Family AT1G47270 51.5 6.4e-113 404.4
Lsi08g00555 . 48 432 TUB Transcription Factor Family AT1G47270 55.0 2.4e-112 402.5
Lsi07g00877 . 1 385 TUB Transcription Factor Family AT1G53320 70.4 4.3e-154 541.2
Lsi07g00258 CCT,ECH 20 413 TUB Transcription Factor Family AT1G53320 51.5 1.5e-103 373.2
Lsi09g01396 CCT,ECH 107 411 TUB Transcription Factor Family AT3G06380 58.9 5.7e-90 327.8
Lsi05g00201 . 117 428 TUB Transcription Factor Family AT3G06380 53.8 4.3e-82 301.6
Lsi08g00555 . 116 432 TUB Transcription Factor Family AT3G06380 51.7 1.1e-80 297.0
Lsi08g00296 . 116 430 TUB Transcription Factor Family AT3G06380 51.9 1.4e-80 296.6
Lsi07g00258 CCT,ECH 119 413 TUB Transcription Factor Family AT3G06380 53.5 1.5e-79 293.1
Lsi04g01686 . 119 406 TUB Transcription Factor Family AT3G06380 52.2 1.7e-78 289.7
Lsi05g01499 CCT,ECH 181 461 TUB Transcription Factor Family AT3G06380 56.9 3.3e-74 275.4
       

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
OG0005909 3 1 2 1 2 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 0 1 1 1 2 1 1 39
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25218 PF01167 Tub 3.60E-105 CL0395 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01686 Lsi_Chr04 FPKM 0.0 0.0 0.445763 0.0 26.42704 25.821781 24.394258 0.0 0.070953 0.131785