Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi05g00520 ATGCATATGGAGTTTTCGGAATACACAAGAGTTGTATTCCATCGAATCAGTAAAATAGATCCAGAGAATGTCAAGAAGATCATTGGTTTCTTACTTCTCCATGATCATGGTGATCAAGAAATGGCTAGGTTAGCACTAGGACCTGATAGCCATATCCAAGAAGTTGTTATGCTAGCCAAGACCGAGCTGCATCAACTACGATCGATGCCGTCTCCGGTGTCACCACTGTCCCCGTCCCCGTCCCCGTCTCAGGGAGGTTTCATTCCATTCTCCATTAGAACCAGGCAGTTTTCAACTTCCCCTCCAAATTGGGAGCAACAACAGCTTACTAACAAACCAACTCCTGATTACTTATCATTAGGCTACCCTGATTCTATGTATGAATTACAAAATCCAGCTCAATTCTTTTGTTTAGATGACCATATCGAACCGTCGAACTCGGGTCTCTCTAGCTTTGATTGTAGCTATGCTGAAAATGATCTCAACAGCTTTAGTACTAGGAACACCCGTCATTACTCGAATGTGCCGGAGTTTCAGCCTAGGACATGTCACTACTACAACAAAGGATTTTGCAAGCATGGAAATAGTTGTAGGTATCTTCATAGCAACCTCGTGCCTGGGAGCCTTTCGCAGATGTATAATACCCATTCTAATGTCAATGATGATCATGTTTTCCAACCCGGTTCGCTCGAGAGGTTGGAGTTTGAAATTGTTGAGCTTCTTAAATCAAGAAGAGGCAGTCCTATTTCAATTGCTTCACTACCAATGATTTATTATGAAAAGTATGGAAAAGTTCTCCAAGCTGAAGGATACCTAACTGAGAGCCAGAGGCATGGTAAATCAGGTTTTAGCTTGACGAAGCTCCTCACTCGATTGAAGACCAGCATTCAAGTCATCGACAGGCCTCATGGACAGCATGCAGTCATTTTGGCAGAAGATGCTCCAAAATTCATGGACTATAGGAAGGATAAGAATGACCCCGGTCCGATCGCAAATGCTAAATATGCTTGTGTTTATTGGCATTGCATTGCATTGTCTTGGCTTATTCCTGTTTCAATTTGCATTTATCTCACTTTGTTTGTGTGTGATTGTAGTGTCCACTATGGACTGGTTGAAGATGTAAGAATACCTTGCCAACAAAGAAGGATGTTCGGGTTTGTGACGTTTCACAGCATCGAGACTGTGAAACTAATCTTGTCCGATGACAGCGAGCATTTAATTTGCGGGGCTCGGGTTCTCGTGAAGCCTTATAGAGAAAAGTCTAAGCTATTGGAAAGGAAGTACCATGAAAGAATTGAACAGCAACAGCAAGATTATTTTTCCTCACACTATAACAACCTCGAATCCGAGCAGCTTCACTCGATTCCAAGAGGCTATGATTTTTCCCCCACAATGCTGAGGCTAAGGATGGAAGAACAGCAGCAGCAACAACAACAACAGCACGCACTCGAGAGGAGCCTTTCCGAGATGACCTTAATTCAGAAATCCGTCGGGAATCAGCCTTACTTTAGCTATCAGATGAATGAACTGAAACTTCCAGTTCCAGAAGCTACAGAAAGGTTTGATCATCTGATGGATATTCTGAATGTTCTGAATAGCGGCTCTGGCTCGAGCTCGAGCTCGAGCTCAATAACCGATGATAACAAGCAACCCCGAAACGTGACGGATTGGAATCACATCGAACTCAACCTCGAGAGTGAAGGATACAATCTTCCAGAGTCCATTTGA 1728 43.29 MHMEFSEYTRVVFHRISKIDPENVKKIIGFLLLHDHGDQEMARLALGPDSHIQEVVMLAKTELHQLRSMPSPVSPLSPSPSPSQGGFIPFSIRTRQFSTSPPNWEQQQLTNKPTPDYLSLGYPDSMYELQNPAQFFCLDDHIEPSNSGLSSFDCSYAENDLNSFSTRNTRHYSNVPEFQPRTCHYYNKGFCKHGNSCRYLHSNLVPGSLSQMYNTHSNVNDDHVFQPGSLERLEFEIVELLKSRRGSPISIASLPMIYYEKYGKVLQAEGYLTESQRHGKSGFSLTKLLTRLKTSIQVIDRPHGQHAVILAEDAPKFMDYRKDKNDPGPIANAKYACVYWHCIALSWLIPVSICIYLTLFVCDCSVHYGLVEDVRIPCQQRRMFGFVTFHSIETVKLILSDDSEHLICGARVLVKPYREKSKLLERKYHERIEQQQQDYFSSHYNNLESEQLHSIPRGYDFSPTMLRLRMEEQQQQQQQQHALERSLSEMTLIQKSVGNQPYFSYQMNELKLPVPEATERFDHLMDILNVLNSGSGSSSSSSSITDDNKQPRNVTDWNHIELNLESEGYNLPESI 575
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 6514040 6519507 + Lsi05G005200.1 Lsi05g00520 663012

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi05g00520 575 PANTHER TRANSCRIPTION FACTOR C3H FAMILY-RELATED 3 556 - -
Lsi05g00520 575 SUPERFAMILY CCCH zinc finger 180 202 IPR036855 GO:0046872
Lsi05g00520 575 Gene3D - 173 250 - -
Lsi05g00520 575 ProSiteProfiles OST-type HTH domain profile. 229 312 IPR025605 -
Lsi05g00520 575 Pfam Zinc finger C-x8-C-x5-C-x3-H type (and similar) 180 202 IPR000571 GO:0046872
Lsi05g00520 575 ProSiteProfiles Zinc finger C3H1-type profile. 177 204 IPR000571 GO:0046872
Lsi05g00520 575 Pfam OST-HTH/LOTUS domain 229 307 IPR025605 -
Lsi05g00520 575 PANTHER RNA-BINDING (RRM/RBD/RNP MOTIFS) 3 556 - -
Lsi05g00520 575 Gene3D - 360 423 IPR012677 -
Lsi05g00520 575 SUPERFAMILY RNA-binding domain, RBD 367 444 IPR035979 GO:0003676
Lsi05g00520 575 MobiDBLite consensus disorder prediction 534 557 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi05g00520 - - - csv:101203347 858.596
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g00520 Lsi-Chr5:6514040 Lsi06g00544 Lsi-Chr6:6786184 2.16E-10 dispersed
Lsi10g00052 Lsi-Chr10:819756 Lsi05g00520 Lsi-Chr5:6514040 3.14E-94 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
Vvi19g619 . . . . Bpe09g00132 . . Bma13g01110 Cmo16g00984 . . . . . . . . . . . . . . . Cla10g00430 Cam10g0428 Cec10g0450 Cco10g0440 Clacu10g0435 Cmu10g1266 Cre10g0683 . . Cone14ag1209 Cone15ag1226 . Csa03g00438 . Cme06g02784 . . . Bda12g00954 . . . . Sed08g2938 . . . Cma16g00946 . Car16g00909 Cpe14g00769 . Bhi11g00494 Tan01g1811 . . . . . . . . . . . . Lsi05g00520 . Chy06g01879 .
       

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
OG0002118 2 2 1 2 1 1 3 1 1 1 1 1 3 1 1 3 1 4 3 1 1 2 2 2 2 2 1 11 6 2 65
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25313 PF12872 OST-HTH 6.90E-10 CL0123 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi05g00520 Lsi_Chr05 FPKM 3.219867 2.860612 4.684381 5.651318 4.514135 4.007255 4.755684 7.794318 7.441016 7.536687