Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi05g00494 ATGGCGGACTCCGACAACGATTCCGGTGGCGGCTACCAGAAATCTCCCTCTCCACGTGAGCACGACAGACTCCTCCCGATCGCCAACGTTGGCCGGATCATGAAAAAGGCTCTCCCTGGGAACGCCAAGATCTCAAAAGACGCCAAAGAAACCGTCCAAGAATGCGTCTCTGAGTTCATCAGCTTCGTCACCGGCGAAGCCTCCGACAAGTGCCACAACGAGAAACGAAAGACGATCAACGGCGATGATTTGCTCTGGGCTATGGCGACCTTAGGGTTCGAAGACTATGTCGATCCTCTCAAGCTTTATCTCCAACGGTTTCGAGAAATTGAAGGCGAGAGGACCACGCTTGCCTCACGTGACTCCGCCTCCGCCGCCTCCGCCGTCAACTCCGCCGGAGTTGCGAATAGTACGTTCTTCGACGGCGGTGGGGAATTTGGGGGTGGGATGGGGATGACGATGCCTCCGAATGTTTATGGTTCTAATGGGCCGCGTTGGGATGGGCCTGGGTTTACTACTACGGGTCGGCCCAGATAG 537 56.42 MADSDNDSGGGYQKSPSPREHDRLLPIANVGRIMKKALPGNAKISKDAKETVQECVSEFISFVTGEASDKCHNEKRKTINGDDLLWAMATLGFEDYVDPLKLYLQRFREIEGERTTLASRDSASAASAVNSAGVANSTFFDGGGEFGGGMGMTMPPNVYGSNGPRWDGPGFTTTGRPR 178
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 6245182 6245718 + Lsi05G004940.1 Lsi05g00494 662986

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi05g00494 178 MobiDBLite consensus disorder prediction 1 24 - -
Lsi05g00494 178 PRINTS CCAAT-binding transcription factor subunit A signature 71 89 - -
Lsi05g00494 178 PRINTS CCAAT-binding transcription factor subunit A signature 90 108 - -
Lsi05g00494 178 PRINTS CCAAT-binding transcription factor subunit A signature 52 70 - -
Lsi05g00494 178 MobiDBLite consensus disorder prediction 159 178 - -
Lsi05g00494 178 PANTHER NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-2 1 151 - -
Lsi05g00494 178 PANTHER CCAAT-BINDING TRANSCRIPTION FACTOR-RELATED 1 151 IPR027113 GO:0001228|GO:0006355|GO:0016602
Lsi05g00494 178 ProSitePatterns NF-YB/HAP3 subunit signature. 55 71 IPR003956 GO:0005634|GO:0006355|GO:0043565
Lsi05g00494 178 Gene3D Histone, subunit A 11 136 IPR009072 GO:0046982
Lsi05g00494 178 SUPERFAMILY Histone-fold 22 127 IPR009072 GO:0046982
Lsi05g00494 178 Pfam Histone-like transcription factor (CBF/NF-Y) and archaeal histone 24 88 IPR003958 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi05g00494 K08065 NFYB, HAP3; nuclear transcription Y subunit beta - csv:101204640 298.516
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi02g02373 Lsi-Chr2:30411328 Lsi05g00494 Lsi-Chr5:6245182 4.22E-52 dispersed
Lsi05g00494 Lsi-Chr5:6245182 Lsi07g00191 Lsi-Chr7:2084961 2.75E-57 dispersed
Lsi05g00494 Lsi-Chr5:6245182 Lsi10g00042 Lsi-Chr10:648177 1.42E-63 transposed
       

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
Vvi14g1189 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lsi05g00494 . Chy06g01388 . . . . . . . . . . . . . . . . . . . . . . . . . Cla09g01911 . . . . . . . . . Cme09g00461
Vvi19g659 . . Bda07g00410 . Bpe09g00129 . Bma10g00590 Bma13g01113 . Cmo06g00687 . . . . . . . . . . . . . . . . . . . . . . . Cone8ag1366 Cone12ag1312 . Csa03g00427 . . . Blo10g00864 . Bda12g00962 Bpe11g00587 . . Bma14g00682 . . . . . . . . . Bhi11g00479 . . . . . . . . . . . . . Lsi05g00494 . Chy06g01888 .
Vvi19g673 . . . . . . . . . Cmo06g00682 . . . . . . . . . . . . . . Cla10g00404 Cam10g0401 Cec10g0423 Cco10g0413 Clacu10g0408 Cmu10g1240 Cre10g0657 . . Cone14ag1222 Cone15ag1295 . Csa03g00425 . Cme06g02755 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lsi05g00494 . . .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi05g00511 . 10 149 CCAAT-HAP3 Transcription Factor Family AT5G47670 67.9 2.6e-48 189.1
Lsi10g00042 . 6 117 CCAAT-HAP3 Transcription Factor Family AT5G47670 60.7 7.0e-38 154.5
Lsi05g00511 . 8 171 CCAAT-HAP3 Transcription Factor Family AT1G21970 60.0 2.5e-51 199.1
Lsi07g00191 . 23 129 CCAAT-HAP3 Transcription Factor Family AT1G21970 61.7 6.0e-37 151.4
Lsi10g00042 . 1 129 CCAAT-HAP3 Transcription Factor Family AT4G14540 86.2 3.5e-57 218.0
Lsi05g00494 . 1 154 CCAAT-HAP3 Transcription Factor Family AT4G14540 67.1 1.6e-49 192.6
Lsi07g00191 . 20 126 CCAAT-HAP3 Transcription Factor Family AT4G14540 86.1 5.7e-47 184.1
Lsi03g02057 . 22 115 CCAAT-HAP3 Transcription Factor Family AT4G14540 87.2 1.3e-43 172.9
Lsi02g02373 . 42 137 CCAAT-HAP3 Transcription Factor Family AT4G14540 72.9 1.8e-37 152.5
Lsi03g02057 . 1 115 CCAAT-HAP3 Transcription Factor Family AT2G38880 79.1 2.9e-48 188.3
Lsi10g00042 . 1 113 CCAAT-HAP3 Transcription Factor Family AT2G38880 70.8 1.4e-42 169.5
Lsi05g00494 . 1 110 CCAAT-HAP3 Transcription Factor Family AT2G38880 71.2 8.9e-42 166.8
Lsi07g00191 . 1 113 CCAAT-HAP3 Transcription Factor Family AT2G38880 71.7 8.9e-42 166.8
Lsi02g02373 . 30 133 CCAAT-HAP3 Transcription Factor Family AT2G38880 69.8 1.2e-38 156.4
Lsi02g02373 . 40 137 CCAAT-HAP3 Transcription Factor Family AT2G47810 84.7 9.9e-44 173.3
Lsi05g00494 . 19 114 CCAAT-HAP3 Transcription Factor Family AT2G47810 76.0 1.5e-39 159.5
Lsi10g00042 . 18 117 CCAAT-HAP3 Transcription Factor Family AT2G47810 71.0 5.6e-39 157.5
Lsi07g00191 . 23 131 CCAAT-HAP3 Transcription Factor Family AT2G47810 67.9 4.8e-38 154.5
Lsi03g02057 . 1 170 CCAAT-HAP3 Transcription Factor Family AT2G37060 73.7 1.3e-60 229.6
Lsi10g00042 . 6 116 CCAAT-HAP3 Transcription Factor Family AT2G37060 76.6 1.3e-44 176.4
Lsi07g00191 . 22 127 CCAAT-HAP3 Transcription Factor Family AT2G37060 73.6 3.8e-41 164.9
Lsi05g00494 . 6 113 CCAAT-HAP3 Transcription Factor Family AT2G37060 72.5 6.5e-41 164.1
Lsi02g02373 . 41 143 CCAAT-HAP3 Transcription Factor Family AT2G37060 68.9 7.5e-37 150.6
Lsi07g00191 . 10 124 CCAAT-HAP3 Transcription Factor Family AT2G13570 75.0 2.1e-44 176.0
Lsi10g00042 . 22 123 CCAAT-HAP3 Transcription Factor Family AT2G13570 81.4 3.5e-44 175.3
Lsi03g02057 . 7 120 CCAAT-HAP3 Transcription Factor Family AT2G13570 69.7 1.2e-41 166.8
Lsi05g00494 . 19 114 CCAAT-HAP3 Transcription Factor Family AT2G13570 80.2 2.1e-41 166.0
Lsi02g02373 . 19 142 CCAAT-HAP3 Transcription Factor Family AT2G13570 64.5 3.1e-40 162.2
Lsi10g00042 . 1 122 CCAAT-HAP3 Transcription Factor Family AT5G47640 79.4 5.3e-52 201.1
Lsi05g00494 . 1 117 CCAAT-HAP3 Transcription Factor Family AT5G47640 81.5 4.9e-50 194.5
Lsi07g00191 . 18 123 CCAAT-HAP3 Transcription Factor Family AT5G47640 80.2 8.2e-45 177.2
Lsi03g02057 . 11 124 CCAAT-HAP3 Transcription Factor Family AT5G47640 71.1 5.0e-42 167.9
Lsi02g02373 . 42 138 CCAAT-HAP3 Transcription Factor Family AT5G47640 76.3 1.1e-38 156.8
Lsi03g02057 . 12 170 CCAAT-HAP3 Transcription Factor Family AT3G53340 74.1 3.2e-59 224.9
Lsi10g00042 . 6 125 CCAAT-HAP3 Transcription Factor Family AT3G53340 71.7 2.6e-45 178.7
Lsi05g00494 . 6 113 CCAAT-HAP3 Transcription Factor Family AT3G53340 73.4 1.3e-41 166.4
Lsi07g00191 . 11 115 CCAAT-HAP3 Transcription Factor Family AT3G53340 74.3 6.6e-41 164.1
Lsi02g02373 . 41 143 CCAAT-HAP3 Transcription Factor Family AT3G53340 69.9 1.5e-37 152.9
       

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
OG0000266 8 6 6 8 9 3 3 3 3 2 3 3 6 4 4 6 3 10 6 3 4 4 4 3 4 3 2 16 9 4 152
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25311 PF00808 CBFD_NFYB_HMF 1.90E-27 CL0012 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi05g00494 Lsi_Chr05 FPKM 1.338192 1.758586 0.419864 0.33814 0.176364 0.329816 0.508792 0.346172 0.855494 0.619621