Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi07g00258 ATGTCGCTTAAAAGCTTTGTTAGAGAGCTGCGAGAGATTAAAGATGGAATTGGGAGCATTTCTAAGCGAGGAGAAGAAGGGAGTAGGCATTGGCGAAACCGAACAATGTCACATATTGCACCAGATCAAGAACCTTCTCCATTGGAGTTAATTCAGCAAGGTCGATGGGCAAATCTGCCCCCTGAATTACTTTTAGACATCATCCGGAGAGTGGAAGAGAGTGAAACCTCGTGGCCTGCTCGAGCTGTAGTTGTTTTTTGTGCTTCAGTTTGTAGGTCTTGGAGGGCCATTACAAAGGAGATTATCAGAACTCCTGAGCAATGTGGAAGGCTCACATTTCCAATCTCATTAAAGCAGCCTGGCCCTCGGGAGTCTCCATTTCAGTGCTTCATCAGAAGGGATAGAGCAACTTCGACCTACCTCCTGTACTTTGGTTTGGTTCCTTCGGAGGACGAAAAGGATAAATTGTTGTTAGCAGCCAAGAGGGTCAGAAGAGCAGCCGGTACTGACTTTATCATATCTTTAGCAGCTGATGATTTTTCTCGAGCGAGTAGTACCTATGTTGGTAAATTAAGGTCTAATTTTCTGGGTACAAAGTTCTCGATTTATGACAGCCAGCCTCCTTGTGACCCTGCAACTCGGCAAAATAGCCGGTCAAGCCGTAGATTTCGCTCTAAGCAAGTCTCTCCTAGGGTTCCTGCATGTAACTACAGTGTAGGTACAATTTCTTATGAACTTAATGTTCTTCGTACTAGAGGTCCTCGGAGGATGCAGTGCATCATGCAAACGATTCCGGTCTCTTCAATTCAGGAGGGAGGCACTGCCCCAACTCCTACATCATTCACATACTCTATCGACGACCACCTTTCTTCCATGTCGGATTCTATGAGAAAGGATTCAGTGAAGGACTTTGGCTCAAAGATCCAATCAGAACCAGCAGTTCAGTGCTCGGATGAATCCTTGGTACTTAAAAACAAGGCACCGAGATGGCACGAGCAGCTGCAGTGCTGGTGCCTAAATTTCAGAGGACGTGTGACTGTGGCATCTGTTAAGAACTTCCAACTCGTTGCTGCTGTTGATCAATCTCACAACGTTTCAGTGGAAGAGCAAGAGAAGGTAATTCTCCAGTTCGGAAAAATTGGAAAAGACATCTTCACCATGGATTACCATTATCCGCTCTCTGCATTCCAAGCCTTTGCAATCTGCTTGAGCAGCTTCGACACGAAGCCAGCCTGCGAATGA 1242 45.97 MSLKSFVRELREIKDGIGSISKRGEEGSRHWRNRTMSHIAPDQEPSPLELIQQGRWANLPPELLLDIIRRVEESETSWPARAVVVFCASVCRSWRAITKEIIRTPEQCGRLTFPISLKQPGPRESPFQCFIRRDRATSTYLLYFGLVPSEDEKDKLLLAAKRVRRAAGTDFIISLAADDFSRASSTYVGKLRSNFLGTKFSIYDSQPPCDPATRQNSRSSRRFRSKQVSPRVPACNYSVGTISYELNVLRTRGPRRMQCIMQTIPVSSIQEGGTAPTPTSFTYSIDDHLSSMSDSMRKDSVKDFGSKIQSEPAVQCSDESLVLKNKAPRWHEQLQCWCLNFRGRVTVASVKNFQLVAAVDQSHNVSVEEQEKVILQFGKIGKDIFTMDYHYPLSAFQAFAICLSSFDTKPACE 413
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
7 2829163 2832345 - Lsi07G002580.1 Lsi07g00258 666680

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi07g00258 413 SUPERFAMILY Tubby C-terminal domain-like 105 413 IPR025659 -
Lsi07g00258 413 PRINTS Tubby superfamily signature 187 211 IPR000007 -
Lsi07g00258 413 PRINTS Tubby superfamily signature 370 389 IPR000007 -
Lsi07g00258 413 PRINTS Tubby superfamily signature 171 187 IPR000007 -
Lsi07g00258 413 PRINTS Tubby superfamily signature 391 413 IPR000007 -
Lsi07g00258 413 PRINTS Tubby superfamily signature 236 263 IPR000007 -
Lsi07g00258 413 PRINTS Tubby superfamily signature 341 357 IPR000007 -
Lsi07g00258 413 PRINTS Tubby superfamily signature 323 340 IPR000007 -
Lsi07g00258 413 Gene3D Tubby Protein; Chain A 115 413 IPR025659 -
Lsi07g00258 413 PANTHER TUBBY-LIKE F-BOX PROTEIN 1 413 - -
Lsi07g00258 413 PANTHER TUBBY-RELATED 1 413 - -
Lsi07g00258 413 MobiDBLite consensus disorder prediction 206 227 - -
Lsi07g00258 413 ProSitePatterns Tub family signature 2. 398 413 IPR018066 -
Lsi07g00258 413 Gene3D - 50 104 - -
Lsi07g00258 413 Pfam F-box domain 56 102 IPR001810 GO:0005515
Lsi07g00258 413 SUPERFAMILY F-box domain 50 100 IPR036047 GO:0005515
Lsi07g00258 413 Pfam Tub family 117 408 IPR000007 -
Lsi07g00258 413 ProSitePatterns Tub family signature 1. 341 354 IPR018066 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi07g00258 K19600 TUB, TULP; tubby and related proteins - csv:101205595 794.267
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Lsi01g00669 Lsi07g00258 CCT
Lsi01g00669 Lsi07g00258 ECH
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi07g00258 Lsi-Chr7:2829163 Lsi08g00555 Lsi-Chr8:13741039 1.05E-155 dispersed
Lsi05g00201 Lsi-Chr5:2777209 Lsi07g00258 Lsi-Chr7:2829163 2.17E-155 transposed
Lsi01g00669 Lsi-Chr1:5398418 Lsi07g00258 Lsi-Chr7:2829163 4.11E-180 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
Vvi4g987 . Blo16g00048 . . . . . . . . . Cma07g00481 . Car07g00424 . Cpe19g00814 . Bhi03g01306 . . . Hepe04g1521 . . Cla01g01915 Cam01g2002 Cec04g1658 Cco04g1720 Clacu01g2022 Cmu01g1898 Cre04g1574 . . Cone6ag1629 Cone9ag1554 Lsi01g00669 . Chy07g01239 Cme08g00854 . . Bda11g01863 . . . . . . . Cmo07g00480 . . . . . . . . . . . . . . . . . . . . Lsi07g00258 Csa06g03246 Chy02g00642 .
       

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
OG0002587 1 10 1 0 0 1 3 2 1 2 1 1 3 2 2 3 1 2 3 2 2 0 2 2 2 2 2 2 3 1 59
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25599 PF01167 Tub 1.20E-106 CL0395 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi07g00258 Lsi_Chr07 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0