Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g00042 ATGGCGGATTCGGATAACGAATCGGGAGGTCACAACAGCAACGCGAACAGCGAGCTATCGGCGAAGGAGCAGGACAGATTCTTGCCGATAGCGAACGTGAGTAGGATCATGAAGAAGGCGTTACCAGCAAACGCGAAGATCTCAAAAGATGCAAAAGAAACCGTACAAGAGTGCGTATCGGAGTTCATAAGCTTCATAACAGGAGAGGCATCGGACAAGTGCCAGAGAGAGAAAAGGAAGACAATCAACGGCGATGATTTGTTGTGGGCCATGACTACGCTTGGATTCGAAGAGTACGTGGAACCGCTCAAGACTTATCTGCAGAAGTACAGGGAAATGGAAGGGGAAAAGAGCACTATGGGGAGACAGGGGGAGAAAGACGGTGGTGGTGGTGGGCCCGGCGGCAGTGGGGCTAATGGTGGTGGTGGTGGTGGTGGTGGTGGAGGAGTCAACTCTGGTACTGCTGGCGGCGGTGGTGGATTTAACGGAGTGGGTGGAATGTATGGTGGGTTGATGATGATGGGGCATCATCAGGGAGGCGTTTATGGTGGTGGTGGATTTCACCACATGGGTATCGGCGGCGGGAAGGGAGGAAGTGGTGGTTCCGGCACCGGTCATCGGTAG 624 54.01 MADSDNESGGHNSNANSELSAKEQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFITGEASDKCQREKRKTINGDDLLWAMTTLGFEEYVEPLKTYLQKYREMEGEKSTMGRQGEKDGGGGGPGGSGANGGGGGGGGGGVNSGTAGGGGGFNGVGGMYGGLMMMGHHQGGVYGGGGFHHMGIGGGKGGSGGSGTGHR 207
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 648177 648800 - Lsi10G000420.1 Lsi10g00042 671599

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g00042 207 MobiDBLite consensus disorder prediction 1 24 - -
Lsi10g00042 207 Gene3D Histone, subunit A 15 131 IPR009072 GO:0046982
Lsi10g00042 207 MobiDBLite consensus disorder prediction 114 145 - -
Lsi10g00042 207 MobiDBLite consensus disorder prediction 1 21 - -
Lsi10g00042 207 PANTHER NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-3 1 182 - -
Lsi10g00042 207 PANTHER CCAAT-BINDING TRANSCRIPTION FACTOR-RELATED 1 182 IPR027113 GO:0001228|GO:0006355|GO:0016602
Lsi10g00042 207 Pfam Histone-like transcription factor (CBF/NF-Y) and archaeal histone 27 91 IPR003958 -
Lsi10g00042 207 PRINTS CCAAT-binding transcription factor subunit A signature 74 92 - -
Lsi10g00042 207 PRINTS CCAAT-binding transcription factor subunit A signature 55 73 - -
Lsi10g00042 207 PRINTS CCAAT-binding transcription factor subunit A signature 93 111 - -
Lsi10g00042 207 SUPERFAMILY Histone-fold 24 126 IPR009072 GO:0046982
Lsi10g00042 207 ProSitePatterns NF-YB/HAP3 subunit signature. 58 74 IPR003956 GO:0005634|GO:0006355|GO:0043565
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g00042 K08065 NFYB, HAP3; nuclear transcription Y subunit beta - csv:101219076 241.121
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g02057 Lsi-Chr3:31884978 Lsi10g00042 Lsi-Chr10:648177 2.03E-60 dispersed
Lsi04g00817 Lsi-Chr4:7784892 Lsi10g00042 Lsi-Chr10:648177 5.64E-21 dispersed
Lsi06g01361 Lsi-Chr6:24173027 Lsi10g00042 Lsi-Chr10:648177 1.27E-14 dispersed
Lsi10g00042 Lsi-Chr10:648177 Lsi10g01151 Lsi-Chr10:15837273 4.13E-06 dispersed
Lsi02g02373 Lsi-Chr2:30411328 Lsi10g00042 Lsi-Chr10:648177 2.99E-51 transposed
Lsi05g00494 Lsi-Chr5:6245182 Lsi10g00042 Lsi-Chr10:648177 1.42E-63 transposed
Lsi06g00125 Lsi-Chr6:1215709 Lsi10g00042 Lsi-Chr10:648177 5.02E-33 transposed
Lsi07g00191 Lsi-Chr7:2084961 Lsi10g00042 Lsi-Chr10:648177 2.00E-63 transposed
Lsi10g00042 Lsi-Chr10:648177 Lsi05g00511 Lsi-Chr5:6412401 1.08E-49 wgd
       

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
25989 PF00808 CBFD_NFYB_HMF 2.00E-27 CL0012 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g00042 Lsi_Chr10 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0