Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g00296 ATGTCGTTTCGTAGTATAGTTCGTGACGTTAGAGAAGGGTTTGGAAGTTTATCTCGGCGTAGTTTTGAGGTGAGACTGCCTGGTCACCAGCGGGGTAAATCTCATGGATCAGTCCATGATTTGCATGACCAACCTCTGGTAATTCAGAACAGTCGTTGGGCTAGCCTCCCGCCTGAGCTATTGCGGGATGTAGTCATGAGACTGGAGGAGAGTGAGAGCATGTGGCCTGCTAGGAAACATGTTGTTGCTTGTGCTGCTGTTTGTAGGTCGTGGAGGGAAATGTGCAAAGAGATAGTAAAAAGTCCCGAGTTCTCTGGAAAAATCACCTTCCCTGTCTCCTTAAAACAGCCAGGGACTCGTGACGGAACCATTCAGTGCTTCATTAAGAGGGACAAATCTAATTTGACTTATCACCTTTACCTTTGCCTCAGTCCCGCTTTACTTGTTGATAATGGGAAGTTTCTTCTTTCTGCCAAAAGAACAAGGAGAACGACGTGCACTGAATACGTGATCTCCATGGATGCAGATAATATATCAAGATCGAGCAACACGTACATTGGAAAACTAAGGTCAAACTTTCTTGGGACCAAGTTCATTATCTATGATACACAGCCACCATACAACAATGCCCAAATTTCCCCACCTGGCCGTAGCCGTAGATTCTACTCGAAAAAAGTTTCTCCAAAAGTCCCAACTGGTAGCTATGACATTGCTCAAGTCACTTATGAACTGAACGTTCTTGGCACAAGAGGCCCCCGAAAGATGCACTGCACAATGCATTCCATCCCTGCCTCGTCTCTTGAGGCCGGTGGTACTGTTCCAGGCCAGCCCGAGGTTGTCCCTCGACTCCTTGGGGAATCATTTCGAAGTATATCATTCTCCAAGTCTGTCTTCAATTCTACAGAGTTCAGTAGTTCCCGTTTCTCTGACATTGTTGGCTCTCGAGACGAAGATGAAATGGGGAAGGAGAGACCACTGGTTCTTAGGAACAAGCCACCGCGGTGGCATGAGCAGTTGCAGTGTTGGTGCCTTAATTTCCGGGGGCGAGTAACCGTTGCTTCTGTGAAGAACTTTCAACTGATAGCTGCTACCGAGCCTTCTTCCACAGCTACAAACCAATCACAGCCAAACCAACATGCCCAATCTTCCCAATCTGACCATGACAAGATCATTCTTCAATTTGGGAAGGTCGGGAAGGACATGTTTACGATGGATTACCGATATCCATTGTCAGCATTTCAAGCCTTTGCAATCTGTTTGAGTAGCTTTGACACCAAATTGGCTTGTGAATAA 1293 46.48 MSFRSIVRDVREGFGSLSRRSFEVRLPGHQRGKSHGSVHDLHDQPLVIQNSRWASLPPELLRDVVMRLEESESMWPARKHVVACAAVCRSWREMCKEIVKSPEFSGKITFPVSLKQPGTRDGTIQCFIKRDKSNLTYHLYLCLSPALLVDNGKFLLSAKRTRRTTCTEYVISMDADNISRSSNTYIGKLRSNFLGTKFIIYDTQPPYNNAQISPPGRSRRFYSKKVSPKVPTGSYDIAQVTYELNVLGTRGPRKMHCTMHSIPASSLEAGGTVPGQPEVVPRLLGESFRSISFSKSVFNSTEFSSSRFSDIVGSRDEDEMGKERPLVLRNKPPRWHEQLQCWCLNFRGRVTVASVKNFQLIAATEPSSTATNQSQPNQHAQSSQSDHDKIILQFGKVGKDMFTMDYRYPLSAFQAFAICLSSFDTKLACE 430
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 7776228 7780264 + Lsi08G002960.1 Lsi08g00296 668222

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g00296 430 PANTHER TUBBY-RELATED 1 430 - -
Lsi08g00296 430 PRINTS Tubby superfamily signature 408 430 IPR000007 -
Lsi08g00296 430 PRINTS Tubby superfamily signature 328 345 IPR000007 -
Lsi08g00296 430 PRINTS Tubby superfamily signature 185 209 IPR000007 -
Lsi08g00296 430 PRINTS Tubby superfamily signature 387 406 IPR000007 -
Lsi08g00296 430 PRINTS Tubby superfamily signature 234 261 IPR000007 -
Lsi08g00296 430 PRINTS Tubby superfamily signature 169 185 IPR000007 -
Lsi08g00296 430 PRINTS Tubby superfamily signature 346 362 IPR000007 -
Lsi08g00296 430 Gene3D Tubby Protein; Chain A 112 424 IPR025659 -
Lsi08g00296 430 Pfam F-box domain 53 100 IPR001810 GO:0005515
Lsi08g00296 430 Gene3D - 48 101 - -
Lsi08g00296 430 PANTHER TUBBY-LIKE F-BOX PROTEIN 10-RELATED 1 430 - -
Lsi08g00296 430 SUPERFAMILY F-box domain 49 96 IPR036047 GO:0005515
Lsi08g00296 430 Pfam Tub family 114 425 IPR000007 -
Lsi08g00296 430 ProSitePatterns Tub family signature 2. 415 430 IPR018066 -
Lsi08g00296 430 ProSitePatterns Tub family signature 1. 346 359 IPR018066 -
Lsi08g00296 430 SUPERFAMILY Tubby C-terminal domain-like 102 430 IPR025659 -
Lsi08g00296 430 MobiDBLite consensus disorder prediction 366 386 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g00296 K19600 TUB, TULP; tubby and related proteins - csv:101206041 856.67
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g00201 Lsi-Chr5:2777209 Lsi08g00296 Lsi-Chr8:7776228 0 dispersed
Lsi05g01499 Lsi-Chr5:22828303 Lsi08g00296 Lsi-Chr8:7776228 1.05E-120 dispersed
Lsi08g00296 Lsi-Chr8:7776228 Lsi08g00555 Lsi-Chr8:13741039 0 dispersed
Lsi08g00296 Lsi-Chr8:7776228 Lsi04g01686 Lsi-Chr4:24240314 1.50E-152 transposed
       

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
OG0000394 5 6 5 8 5 3 5 3 3 3 3 3 5 3 3 5 3 6 5 3 3 3 2 3 3 3 3 14 4 2 125
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25718 PF01167 Tub 9.00E-119 CL0395 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi08g00296 Lsi_Chr08 FPKM 0.0 0.0 0.0 0.0 0.870619 1.356778 1.042533 0.0 0.0 0.0