Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00561 ATGCAGGTCAGTGTGCCATGTAGCAGCTTGTCGATGGCGGTCACCGTGACGTGTGGCCATTGCTCAAGCCTCCTTTCTGTTAACATGATGAAAGCCACTCTGGTTCCTCTTCATTTTCTGTCTTCTTTATCTCGCAATGTGCCCAAAGTAGCTTGTAGAGAAATGAATTCAGGGAAGTTCTTTGACAGTTTCAAAAGATCAAACTTGAAATTTTCCGAGTATGAAGTTGAAGAAAACTTGATTCCTGTGATTCCTCCTTTTGTAAACAAACCTCCTGAGAAAAGACAGCGTGCTCCATCAGCATACAATTGTTTCATCAAGGATGAAATCAGAAGGCTCAAAGCTCAAAATCCTGAAATGACACACAAGGAGGCCTTTAGAACAGCTGCAAAAAATTGGGCAAATTTCCCTCCAATCCAAGAAAAAGAAGATGCAGAGAGCTGTAATCAGATTGAGGGAAATGGGAGTTGGAACACTCAAATTCCTGAGGTTCACAAGGATGGAAAGTGTTTCCCAAGGCATTCATTTTTGACATAA 537 41.71 MQVSVPCSSLSMAVTVTCGHCSSLLSVNMMKATLVPLHFLSSLSRNVPKVACREMNSGKFFDSFKRSNLKFSEYEVEENLIPVIPPFVNKPPEKRQRAPSAYNCFIKDEIRRLKAQNPEMTHKEAFRTAAKNWANFPPIQEKEDAESCNQIEGNGSWNTQIPEVHKDGKCFPRHSFLT 178
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 5114851 5116128 - Lsi04G005610.1 Lsi04g00561 660610

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00561 178 Pfam YABBY protein 2 140 IPR006780 GO:0007275
Lsi04g00561 178 PANTHER PROTEIN YABBY 6-RELATED 3 160 IPR006780 GO:0007275
Lsi04g00561 178 CDD HMG-box 97 143 - -
Lsi04g00561 178 SUPERFAMILY HMG-box 82 138 IPR036910 -
Lsi04g00561 178 Gene3D High mobility group box domain 88 152 IPR036910 -
Lsi04g00561 178 PANTHER AXIAL REGULATOR YABBY 4 3 160 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00561 K25796 YAB; plant-specific transcription factor YABBY family protein - csv:101211641 314.309
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00561 Lsi-Chr4:5114851 Lsi09g00397 Lsi-Chr9:4170250 3.20E-33 dispersed
Lsi04g00561 Lsi-Chr4:5114851 Lsi08g01669 Lsi-Chr8:24447776 3.00E-46 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
Vvi1g669 . . . . . . . . . . . . . . . . Cpe01g01541 Bhi07g01746 . . Lac13g0189 Hepe10g1628 . . Cla05g02553 Cam05g2741 Cec05g2773 Cco05g2813 Clacu05g2742 Cmu05g2594 Cre05g2709 . . . . Lsi04g00561 Csa05g02325 Chy10g00892 Cme10g00537 . Blo11g00921 . . . . . . . . . Cma04g01741 Cma05g00022 Car04g01775 Car05g00019 . . . . . . . . . . . . . . . . . . . .
       

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
OG0012058 0 3 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 2 1 1 30
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25146 PF04690 YABBY 2.20E-47 CL0114 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00561 Lsi_Chr04 FPKM 2.244775 2.558765 5.423045 5.384019 2.805615 2.186679 3.246519 15.92934 16.09672 18.319708