Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g01142 ATGTCGGGTTCTCGAGCTCCCAACTCCTCTGGACACCTGCCTGAGCAGATCATGCACTCTCTTAAGCGCCAACTCCCTTTCTCTTCTATGAAACCACCATTTGCATCACCTGGGGACTATCACCGCTTCGCTCCGGACTCTCGACTCGCCGATCAAGAACCTGACGCTATCGTAGTCAAATCTCCACAATTGAAGAGGAAGAGTGAGGTAGCAGATTATGAAGCTGAGTCAACTGATAGAGCTGCCGGTCCTAGATTTACTGAGATTGTTAACAGTCCCCATCAAACACCTGTATCTGTCAAAGGAGGAAAGGGAAGCAAATCAAGGCTTACCAAATGCAGTAGATCGGGGCCACAGACTCCCATGTCAAATGTTGGTAAGTTGTATATCATACATGCTAGTCCCCTTGGTTTGAAGTTAAAAATTCTATATATAAAATACCTTCTCCGATTCTTGTTTCTGAGTGAGGAAAGTGAAGCTCCTTTGCTAAAGAAATTGCGTTCACCTTCTACAAACAATCTTACTCCAGCTGGTCCATGCCGTTATGATAGTTCTCTTGGTCTCTTGACAAAGAAGTTCATTAATTTGATTAAACAAGCGGAAGATGGTATTCTTGATCTAAATAAAGCAGCTGACACGTTGGAGGTACAAAAAAGACGAATATATGATATAACAAATGTCCTCGAGGGAATTGGTCTCATAGAAAAGAAGCTTAAGAACAGAATTCAGTGGAAGGGGCTTGACGTCTCAAGGTCAGGGGATGTCGATGACAATTATGCTGGTCTACAGGTATGCAAAAATATGACATTGACTGCAGAAGTAGAGAACCTTACCATGGAGGAGCGTGGAATAGACGAACAAATAAGAGAGATGCAGGAAAGATTAAGGGACCTCAGTGAAGATGAGAACAACCAAAGGTGGCTTTTTGTAACCGAGGAAGACATCAAGGGTTTGCCCTGTTTCCAGAATGAAACTCTCATAGCCATTAAAGCTCCCCATGGAACCACTTTAGAAGTTCCAGATCCTGATGAGGCTGTTGACTACCCCCAAAGGAGGTACAGGATAGTACTCAGAAGCACCATGGGCCCCATAGATGTTTACCTTGTTAGTCAGTTTGAAGCGAAGTTTGAGGAGATAAATGCTGTGGAAGTGCCCCCAAGCTTGCCGTCAAGTTCAGGATTGAACGAAGCACCTGCAACTACGATAGAAACAGAGGATACCAGGGGAAAGGAAATTGAAACACGGGAGCAAGATGTACACAGAATGTGCTCCGATCTAAATGCTTCACAGGACTTCGTGGGTGGAATTATGAAAATTGTTCCCTCGGTTGTAGATAGTGATGCTGATTACTGGCTCTTGTCTGATGCTGATGTTAGTATCACAGACATGTGGAGAACTGAACCTGGCGTTGAGTGGAATGAATTGGGTACATTTCATGAAGATTATAGTATTGGCAATGTCAACTCACCCCAAACCCAGACTCCACTTCCGAATGATGCACCTGATTTGCCTTCTGCTAATCCTTCTAGCAGCTGA 1536 44.14 MSGSRAPNSSGHLPEQIMHSLKRQLPFSSMKPPFASPGDYHRFAPDSRLADQEPDAIVVKSPQLKRKSEVADYEAESTDRAAGPRFTEIVNSPHQTPVSVKGGKGSKSRLTKCSRSGPQTPMSNVGKLYIIHASPLGLKLKILYIKYLLRFLFLSEESEAPLLKKLRSPSTNNLTPAGPCRYDSSLGLLTKKFINLIKQAEDGILDLNKAADTLEVQKRRIYDITNVLEGIGLIEKKLKNRIQWKGLDVSRSGDVDDNYAGLQVCKNMTLTAEVENLTMEERGIDEQIREMQERLRDLSEDENNQRWLFVTEEDIKGLPCFQNETLIAIKAPHGTTLEVPDPDEAVDYPQRRYRIVLRSTMGPIDVYLVSQFEAKFEEINAVEVPPSLPSSSGLNEAPATTIETEDTRGKEIETREQDVHRMCSDLNASQDFVGGIMKIVPSVVDSDADYWLLSDADVSITDMWRTEPGVEWNELGTFHEDYSIGNVNSPQTQTPLPNDAPDLPSANPSSS 511
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 15738236 15746132 + Lsi10G011420.1 Lsi10g01142 672699

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g01142 511 PANTHER TRANSCRIPTION FACTOR E2FB 18 126 - -
Lsi10g01142 511 MobiDBLite consensus disorder prediction 386 402 - -
Lsi10g01142 511 SUPERFAMILY E2F-DP heterodimerization region 268 371 IPR037241 -
Lsi10g01142 511 MobiDBLite consensus disorder prediction 1 15 - -
Lsi10g01142 511 MobiDBLite consensus disorder prediction 1 47 - -
Lsi10g01142 511 CDD E2F_DD 266 371 IPR032198 GO:0046983
Lsi10g01142 511 Coils Coil 274 301 - -
Lsi10g01142 511 PANTHER TRANSCRIPTION FACTOR E2F 18 126 IPR015633 GO:0000978|GO:0006357
Lsi10g01142 511 MobiDBLite consensus disorder prediction 92 119 - -
Lsi10g01142 511 Gene3D - 265 371 - -
Lsi10g01142 511 PANTHER TRANSCRIPTION FACTOR E2FB 165 500 - -
Lsi10g01142 511 Gene3D - 175 248 IPR036388 -
Lsi10g01142 511 PANTHER TRANSCRIPTION FACTOR E2F 165 500 IPR015633 GO:0000978|GO:0006357
Lsi10g01142 511 SUPERFAMILY Winged helix DNA-binding domain 181 244 IPR036390 -
Lsi10g01142 511 Coils Coil 197 217 - -
Lsi10g01142 511 MobiDBLite consensus disorder prediction 483 511 - -
Lsi10g01142 511 SMART E2F_TDP_2 181 246 IPR003316 GO:0005667|GO:0006355
Lsi10g01142 511 Pfam E2F/DP family winged-helix DNA-binding domain 183 246 IPR003316 GO:0005667|GO:0006355
Lsi10g01142 511 Pfam E2F transcription factor CC-MB domain 270 370 IPR032198 GO:0046983
Lsi10g01142 511 MobiDBLite consensus disorder prediction 386 411 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g01142 K06620 E2F3; transcription factor E2F3 - csv:101219318 870.537
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi08g01329 Lsi-Chr8:21589823 Lsi10g01142 Lsi-Chr10:15738236 1.09E-12 dispersed
Lsi10g01142 Lsi-Chr10:15738236 Lsi02g00346 Lsi-Chr2:2942389 6.00E-10 dispersed
Lsi08g01330 Lsi-Chr8:21591913 Lsi10g01142 Lsi-Chr10:15738236 6.13E-36 transposed
Lsi01g01191 Lsi-Chr1:10116350 Lsi10g01142 Lsi-Chr10:15738236 3.07E-157 wgd
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi02g00346 CCT 537 909 E2F-DP Transcription Factor Family AT3G48160 50.8 1.3e-92 337.0
Lsi01g01191 . 332 766 E2F-DP Transcription Factor Family AT2G36010 54.9 3.1e-117 419.1
Lsi10g01142 . 21 490 E2F-DP Transcription Factor Family AT2G36010 50.2 1.9e-114 409.8
Lsi10g01142 . 10 495 E2F-DP Transcription Factor Family AT5G22220 52.1 3.7e-107 385.6
Lsi01g01191 . 328 773 E2F-DP Transcription Factor Family AT5G22220 50.1 6.5e-96 348.2
Lsi10g01142 . 10 495 E2F-DP Transcription Factor Family AT5G22220 52.1 3.7e-107 385.6
Lsi01g01191 . 328 773 E2F-DP Transcription Factor Family AT5G22220 50.1 6.5e-96 348.2
Lsi01g01191 . 332 766 E2F-DP Transcription Factor Family AT2G36010 54.9 3.1e-117 419.1
Lsi10g01142 . 21 490 E2F-DP Transcription Factor Family AT2G36010 50.2 1.9e-114 409.8
Lsi02g00346 CCT 537 909 E2F-DP Transcription Factor Family AT3G48160 50.8 1.3e-92 337.0
       

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
OG0004238 2 3 2 1 2 1 2 1 1 1 1 1 2 1 1 2 1 2 3 1 1 1 1 1 1 1 1 1 2 2 43
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
26065 PF16421 E2F_CC-MB 3.60E-34 No_clan Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g01142 Lsi_Chr10 FPKM 6.664418 5.838307 2.750659 2.808903 9.577813 9.696017 10.116316 2.156333 2.278356 2.167264