Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g01067 ATGGGATACATTCCCAGCGGTTGTTTCCTGAATCTAGGGCTGTGGATTTCCAGAATTTTCCATCCAAGTGAGTTCGTCTCTTTCTCTGACTTGATTTTGCAAGATTCTGAAGGCATGCAGTCAAAGTCTAAAAGTGTGAATCAACTAGAATCTGAACCACCAAATATGCAGCATACTAGTAGTTATTCTGAACCTTGGTGGCGTAGCATTGGGTACAATCATATCTCCCCGCCAGCAGCAGGAGGAAATGTGTCAAATTCAACATCACTGGAATGCACTAATGGTGCTTCAGAATCTAATGATGGTCAGTCCATGTCAAATGATGATTTAAATGAAGACGATGATGATGACACCACAAAAGATTCACATGGTATGGCCCTCTTGGCGTTTTTGCTTGCTAAATCATGTTATAGTTCAAAGAAAGGCACTTATGCAAGTTATGGGCAAGTACAAGACAACTGTCAGCACGCTGTTTCTGCTGCTCCTACAGTGCATGGTGGATGTATCACACAACCTCCTCAGCTTGAACTTGTAGGCCACTCTATTGCATGTGCATCAAACCCATATCAGGATCCTTATTATGCTGGAGCGATGGCTGCCTACGGGCATCAACCGGGTTATCCTCCTTTTCTTGGGATGCCACATGCTAGAATGGCTTTGCCCCTTGAGGTGACACAGGAGCCTGTTTTTGTGAATGCCAAACAATATCAAGGGATTCTAAGGCGAAGACAAGCACGTGCTAAAGCAGAGGTTGAGAACAAACTGATAAAAGTTAGAAAGCCATATCTTCATGAATCTCGTCACCAGCATGCTATGAGACGGGCCAGGGGTAGTGGTGGACGATTTGCCAAGAAAAATGAAGCTAATTCCTTGAGTTCTACTATGAAGGACAAGGACTCTGGTTCTGGTCAAGCTATCTCGTCGCACTCTGCTGGTTCATCTGGTTCTGAAGCAGCGCCTTGTGCCCTGGCTGAAACCTGGAATTCTTCCAATGGCCAACAAGAAGCAAGGACCCAGTTGCATGAAGCATATGAAGCTCGAAGTTATGCGAACGGAAGTAGCCAATTCCATAGTTACAGTAGCTTCCAAGCTTCTTCGTATGGTTTACGGTCTGGTGAGAGAGGTGAAGATGGAGACTGCTCGGGACAGCAGCGAAGTATCTCAGAAAATCAGGCTGCACAGAGGCGTCTTGCCATCAACTCCCAGATGCTTTCCCTTCGGTCTCTCTTCAATCAAAACCAGCGGCCGCCATTGATAGCCACCAAGAAATGCTCTGATGATGTTTTGAGTAGAAGAAATTTCCACTCATTTCATTATTCTGCTTCTCGTTGTTGCATTGTGCGTGCAAGGGAGACAGATTCTCAACAGTTTGAGGTTGACCCAGATAAGGCCAGGCAAGCCCTTCAAGAGCTTGATCAGCAGCTTCAATCTTTCTCCAAGAAACAAGTCACTTCTCCCAAGAAGAAAGTTGAAGATAGGAAGCTTCCAAGAAGTCAAATGAGAGGAGAAATGACAGAGATTTCAGGGGCCCTTTTAGCAAATTCAGCTGTTGCTCTCTTCATCTTCTCCATTTTCTACAATGTGCTGTTTTATGCAGTCATAAAGCCTTCCATTGATGGTCCATTACCAAGTTCAGTCAGTTCTGACTTTGAGAGAGAATCTACTGAGCCATCAGTTTTGCAGCAGCTTCCACTTTCATCTGTGTTCATATCCCCCTCACTTCTTAGTTAA 1731 44.83 MGYIPSGCFLNLGLWISRIFHPSEFVSFSDLILQDSEGMQSKSKSVNQLESEPPNMQHTSSYSEPWWRSIGYNHISPPAAGGNVSNSTSLECTNGASESNDGQSMSNDDLNEDDDDDTTKDSHGMALLAFLLAKSCYSSKKGTYASYGQVQDNCQHAVSAAPTVHGGCITQPPQLELVGHSIACASNPYQDPYYAGAMAAYGHQPGYPPFLGMPHARMALPLEVTQEPVFVNAKQYQGILRRRQARAKAEVENKLIKVRKPYLHESRHQHAMRRARGSGGRFAKKNEANSLSSTMKDKDSGSGQAISSHSAGSSGSEAAPCALAETWNSSNGQQEARTQLHEAYEARSYANGSSQFHSYSSFQASSYGLRSGERGEDGDCSGQQRSISENQAAQRRLAINSQMLSLRSLFNQNQRPPLIATKKCSDDVLSRRNFHSFHYSASRCCIVRARETDSQQFEVDPDKARQALQELDQQLQSFSKKQVTSPKKKVEDRKLPRSQMRGEMTEISGALLANSAVALFIFSIFYNVLFYAVIKPSIDGPLPSSVSSDFERESTEPSVLQQLPLSSVFISPSLLS 576
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 14907187 14914731 + Lsi10G010670.1 Lsi10g01067 672624

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g01067 576 Gene3D - 225 287 - -
Lsi10g01067 576 MobiDBLite consensus disorder prediction 82 119 - -
Lsi10g01067 576 PRINTS CCAAT-binding transcription factor subunit B signature 228 250 IPR001289 GO:0003700|GO:0006355
Lsi10g01067 576 PRINTS CCAAT-binding transcription factor subunit B signature 259 282 IPR001289 GO:0003700|GO:0006355
Lsi10g01067 576 MobiDBLite consensus disorder prediction 264 319 - -
Lsi10g01067 576 Pfam CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B 227 282 IPR001289 GO:0003700|GO:0006355
Lsi10g01067 576 ProSitePatterns NF-YA/HAP2 subunit signature. 230 250 IPR018362 GO:0003677|GO:0016602
Lsi10g01067 576 MobiDBLite consensus disorder prediction 285 315 - -
Lsi10g01067 576 MobiDBLite consensus disorder prediction 264 279 - -
Lsi10g01067 576 PANTHER NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT A-9 68 388 - -
Lsi10g01067 576 SMART cbf3 224 285 IPR001289 GO:0003700|GO:0006355
Lsi10g01067 576 MobiDBLite consensus disorder prediction 368 389 - -
Lsi10g01067 576 PANTHER TRANSCRIPTION FACTOR NF-Y ALPHA-RELATED 68 388 IPR001289 GO:0003700|GO:0006355
Lsi10g01067 576 ProSiteProfiles NF-YA/HAP2 family profile. 225 285 IPR001289 GO:0003700|GO:0006355
Lsi10g01067 576 MobiDBLite consensus disorder prediction 43 62 - -
Lsi10g01067 576 MobiDBLite consensus disorder prediction 82 106 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g01067 K08064 NFYA, HAP2; nuclear transcription factor Y, alpha - csv:101212961 612.838
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi01g01877 Lsi-Chr1:21286555 Lsi10g01067 Lsi-Chr10:14907187 3.55E-33 dispersed
Lsi03g01809 Lsi-Chr3:29531882 Lsi10g01067 Lsi-Chr10:14907187 3.38E-29 dispersed
Lsi01g00084 Lsi-Chr1:819804 Lsi10g01067 Lsi-Chr10:14907187 3.59E-34 transposed
Lsi10g01067 Lsi-Chr10:14907187 Lsi02g02572 Lsi-Chr2:32168608 2.43E-52 wgd
Lsi10g01067 Lsi-Chr10:14907187 Lsi06g00527 Lsi-Chr6:6472242 3.65E-96 wgd
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi10g01067 . 163 399 CCAAT-HAP2 Transcription Factor Family AT3G20910 50.4 1.4e-46 183.7
Lsi06g00527 . 58 242 CCAAT-HAP2 Transcription Factor Family AT3G20910 57.5 1.0e-41 167.5
Lsi01g00084 . 31 164 CCAAT-HAP2 Transcription Factor Family AT1G30500 65.0 3.2e-41 165.2
       

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
OG0001124 3 6 3 3 3 2 4 2 1 2 2 2 3 2 2 4 2 4 4 2 2 2 2 2 2 2 2 6 2 1 79
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
26059 PF02045 CBFB_NFYA 4.00E-26 No_clan Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g01067 Lsi_Chr10 FPKM 3.879817 5.743401 4.359668 5.875825 5.342385 5.660381 5.069815 7.424142 8.201479 8.315501