Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi01g00084 ATGGGCTCCTTATATAATGGTGAGGCTGATGAGCAGCAAAAGTACTCTGAAGCTCAGAATCATTCTTCATCAGTCATAAATGGACTAAATCAACCCAGCATCGCAACCCCAAATCAGTATGTAACGTCTCCTCAAGTTGGAGCAGGACATGCTATGGCACCCCCTGCTTATCCATATCCAGATCCTTATTACAGAAGCATCTTCACTCCGTATGAAGCTCAACCATATCCTCCACAGCCCTATGGTGGGCAACCTATGGTTCATCTTCAATTAATGGGAATCCAGCAAGCTGGGGTTCCTTTGCCAACAGATGCAGTTGAGGAGCCTGTTTTTGTCAATGCTAAACAGTATCATGGCATTTTACGACGCCGACAGTCCCGTGCAAAAGCTGAATCAGAAAATAAAGCTCTAAAGTCTAGGAAGCCATACTTGCATGAGTCTCGACATCTGCATGCATTGAGGAGAGCTAGAGGTTGTGGTGGACGAGAACTGATGTCTGAGGCATTGTTGGTGAATGGTGAACAGCGCATCTCAACAATTATTGGCACAGTACATATAAATGCTGATGTTGCTGAAACTTTTATGGGAAGCTTTGTAATGGAAGGAGATGGAGTCGACAAGAGGATCTCAGTGTTGACAGTTTTCTCATATTTGCTTGTTCCTGCATTGAAGTAG 675 44.3 MGSLYNGEADEQQKYSEAQNHSSSVINGLNQPSIATPNQYVTSPQVGAGHAMAPPAYPYPDPYYRSIFTPYEAQPYPPQPYGGQPMVHLQLMGIQQAGVPLPTDAVEEPVFVNAKQYHGILRRRQSRAKAESENKALKSRKPYLHESRHLHALRRARGCGGRELMSEALLVNGEQRISTIIGTVHINADVAETFMGSFVMEGDGVDKRISVLTVFSYLLVPALK 224
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 819804 825552 + Lsi01G000840.1 Lsi01g00084 652742

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi01g00084 224 PANTHER TRANSCRIPTION FACTOR NF-Y ALPHA-RELATED 7 166 IPR001289 GO:0003700|GO:0006355
Lsi01g00084 224 SMART cbf3 105 166 IPR001289 GO:0003700|GO:0006355
Lsi01g00084 224 ProSitePatterns NF-YA/HAP2 subunit signature. 111 131 IPR018362 GO:0003677|GO:0016602
Lsi01g00084 224 PRINTS CCAAT-binding transcription factor subunit B signature 140 163 IPR001289 GO:0003700|GO:0006355
Lsi01g00084 224 PRINTS CCAAT-binding transcription factor subunit B signature 109 131 IPR001289 GO:0003700|GO:0006355
Lsi01g00084 224 PANTHER NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT A-7 7 166 - -
Lsi01g00084 224 MobiDBLite consensus disorder prediction 1 31 - -
Lsi01g00084 224 Gene3D - 106 166 - -
Lsi01g00084 224 ProSiteProfiles NF-YA/HAP2 family profile. 106 166 IPR001289 GO:0003700|GO:0006355
Lsi01g00084 224 Pfam CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B 108 162 IPR001289 GO:0003700|GO:0006355
Lsi01g00084 224 MobiDBLite consensus disorder prediction 9 31 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi01g00084 K08064 NFYA, HAP2; nuclear transcription factor Y, alpha - csv:101205549 271.552
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi01g00084 Lsi-Chr1:819804 Lsi06g00527 Lsi-Chr6:6472242 6.46E-31 dispersed
Lsi01g00084 Lsi-Chr1:819804 Lsi02g02572 Lsi-Chr2:32168608 1.02E-35 transposed
Lsi01g00084 Lsi-Chr1:819804 Lsi10g01067 Lsi-Chr10:14907187 3.59E-34 transposed
       

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
OG0004501 2 1 2 2 2 1 2 1 1 1 1 2 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 2 1 1 41
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
24545 PF02045 CBFB_NFYA 1.30E-24 No_clan Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi01g00084 Lsi_Chr01 FPKM 10.202369 13.346891 8.37541 8.906479 16.154705 12.80238 15.110209 16.493448 17.09185 16.987411