Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g01644 GATGATGTCATCTACTATGAAATTCTCACAACCTTAGATAGAGGCAGAGAAACGAATCGTGAAGGCTGTTACCTTATCTCAACTCTTTTCCGAGTTCATTTGGCTAACCCCTACTACAACCGCCGCCGTCGCCGGCCGATGGACACCAACAATCAAGCCCAATCCTCTCCTTACCCTCCTCCTCAGGCCCCTGTTCCGGCCCCTCCTTTCCACCACCTCCTTCAGCAGCAGCAGCAACAGCTTCAGATGTTCTGGACTTTTCAGCGCCAAGAAATCGAACAGGTTAACGATTTTAAAAACCATCAGCTTCCTCTTGCACGCATTAAGAAGATCATGAAAGCCGATGAGGACGTTCGTATGATCTCTGCCGAGGCCCCCATTTTGTTCGCCAAGGCCTGCGAGCTCTTCATTCTTGAACTCACTATTAGGTCATGGCTCCACGCGGAAGAGAATAAGAGGCGGACATTGCAGAAGAATGATATTGCAGCTGCCATCACGAGGACCGATATCTTTGATTTCTTAGTTGATATTGTGCCTAGGGATGAGATCAAGGACGAGGCTGGGTTGGGAGGCATGGTCGGAGCCACTGCTAGCGGAGTTCCGTACTATTATCCGCCTATGGGCCAACCGGCAGGGGCTCCCGGGGGTATGATGATTGGGAGACCGGCAATGGATCCCACCGGGGTTTATGCTCAGCCGCCGTCCCAGGCGTGGCAATCCGTGTGGCAGACCGCTGCTGAGGACGGTTCTTACGCGAGTGGAGGCAGCAGCGGGCAGGGTAACCTTGATGGTCAGAGGCACAAGGAAGTCAACTCGTTCGGTTTCCGTTTCCAATCATTCCGACGAAGCTCCATTCCCAATTATCAAAACTTGATTTCTACGTCGCAGGGAATGGACGCCATTGATTCAGTCGTTGATCCTCTCAGAGAGTTCGCTAAGGATAGCGTTCGTCTCGTCAAAAGATGCCACAAGCCTGATCGCAATGGCATGTCTTTCCTTCACCTCCTTCAATTCACTAAAGTGGCATTCCGTACGGCAATCGGTTTCGTCGTGATGGGATTTGTCGGGTTTTTCGTCAAATTGATCTTTATTCCGATTAACAACATAATCGTCGGATCTGGATAG 1125 50.93 DDVIYYEILTTLDRGRETNREGCYLISTLFRVHLANPYYNRRRRRPMDTNNQAQSSPYPPPQAPVPAPPFHHLLQQQQQQLQMFWTFQRQEIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDIFDFLVDIVPRDEIKDEAGLGGMVGATASGVPYYYPPMGQPAGAPGGMMIGRPAMDPTGVYAQPPSQAWQSVWQTAAEDGSYASGGSSGQGNLDGQRHKEVNSFGFRFQSFRRSSIPNYQNLISTSQGMDAIDSVVDPLREFAKDSVRLVKRCHKPDRNGMSFLHLLQFTKVAFRTAIGFVVMGFVGFFVKLIFIPINNIIVGSG 374
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 26741318 26749889 - Lsi06G016440.1 Lsi06g01644 666374

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g01644 374 MobiDBLite consensus disorder prediction 41 64 - -
Lsi06g01644 374 Pfam Core histone H2A/H2B/H3/H4 94 165 IPR007125 GO:0003677
Lsi06g01644 374 Pfam SecE/Sec61-gamma subunits of protein translocation complex 310 370 IPR001901 GO:0006605|GO:0006886|GO:0016020
Lsi06g01644 374 PANTHER HISTONE-LIKE TRANSCRIPTION FACTOR CCAAT-RELATED 48 265 - -
Lsi06g01644 374 PANTHER NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-4 48 265 - -
Lsi06g01644 374 Hamap Protein translocase subunit SecE [secE]. 306 369 IPR001901 GO:0006605|GO:0006886|GO:0016020
Lsi06g01644 374 SUPERFAMILY Histone-fold 65 174 IPR009072 GO:0046982
Lsi06g01644 374 Gene3D Preprotein translocase SecE subunit 304 373 IPR023391 -
Lsi06g01644 374 Gene3D Histone, subunit A 70 180 IPR009072 GO:0046982
Lsi06g01644 374 SUPERFAMILY Preprotein translocase SecE subunit 302 370 IPR023391 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g01644 - - - csv:101213576 357.451
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Lsi02g00510 Lsi06g01644 CCT
Lsi02g00510 Lsi06g01644 ECH
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g00820 Lsi-Chr3:12431968 Lsi06g01644 Lsi-Chr6:26741318 2.92E-68 transposed
Lsi04g00745 Lsi-Chr4:6935481 Lsi06g01644 Lsi-Chr6:26741318 9.07E-11 transposed
Lsi06g00137 Lsi-Chr6:1329161 Lsi06g01644 Lsi-Chr6:26741318 2.89E-67 transposed
Lsi07g00895 Lsi-Chr7:10230349 Lsi06g01644 Lsi-Chr6:26741318 2.91E-30 transposed
Lsi08g00862 Lsi-Chr8:17035733 Lsi06g01644 Lsi-Chr6:26741318 9.93E-09 transposed
Lsi10g01125 Lsi-Chr10:15493505 Lsi06g01644 Lsi-Chr6:26741318 4.29E-10 transposed
Lsi02g00510 Lsi-Chr2:4316239 Lsi06g01644 Lsi-Chr6:26741318 4.67E-39 wgd
Lsi06g01644 Lsi-Chr6:26741318 Lsi07g01480 Lsi-Chr7:21563778 1.92E-36 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
Vvi17g101 . Blo16g00272 Bda06g00725 . Bpe12g00479 Bpe13g00200 Bma06g00261 Bma12g01083 Cmo13g00841 Cmo18g00222 . . . . . Cpe20g00303 . Bhi02g00520 . . . . . . . . . . . . . Cone2ag0981 Cone16ag0015 Cone13ag0226 Cone19ag0211 Lsi02g00510 Csa01g00972 Chy12g01161 Cme12g01585 . Blo15g00206 Bda11g01596 Bda14g01358 Bpe07g00892 Bpe15g00222 Bma03g01251 . Sed08g2430 . . Cma13g00811 Cma18g00314 Car13g00657 Car18g00233 Cpe09g00957 . Bhi08g01503 Tan05g2975 Cmetu12g2007 Lac10g0589 Hepe07g2115 . . Cla03g00359 Cam03g0379 Cec03g0365 . Clacu03g0378 Cmu03g0983 Cre03g0675 Lsi06g01644 Csa01g00053 . .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi06g01644 CCT,ECH 81 265 CCAAT-HAP5 Transcription Factor Family AT3G48590 90.1 3.0e-89 325.1
Lsi03g00820 . 82 225 CCAAT-HAP5 Transcription Factor Family AT3G48590 69.4 2.0e-53 206.1
Lsi06g00137 . 82 250 CCAAT-HAP5 Transcription Factor Family AT3G48590 65.1 1.3e-52 203.4
Lsi06g00137 . 1 260 CCAAT-HAP5 Transcription Factor Family AT1G08970 55.2 8.1e-55 210.7
Lsi03g00820 . 28 180 CCAAT-HAP5 Transcription Factor Family AT1G08970 69.9 9.6e-48 187.2
Lsi06g01644 CCT,ECH 81 179 CCAAT-HAP5 Transcription Factor Family AT1G08970 82.8 2.7e-42 169.1
Lsi06g00137 . 23 250 CCAAT-HAP5 Transcription Factor Family AT1G54830 60.5 8.4e-62 233.8
Lsi03g00820 . 28 224 CCAAT-HAP5 Transcription Factor Family AT1G54830 59.1 1.6e-52 203.0
Lsi06g01644 CCT,ECH 81 239 CCAAT-HAP5 Transcription Factor Family AT1G54830 67.1 6.7e-51 197.6
Lsi06g01644 CCT,ECH 81 238 CCAAT-HAP5 Transcription Factor Family AT5G50480 54.4 1.0e-37 153.7
Lsi06g01644 CCT,ECH 81 265 CCAAT-HAP5 Transcription Factor Family AT5G63470 82.0 2.4e-81 298.9
Lsi03g00820 . 82 233 CCAAT-HAP5 Transcription Factor Family AT5G63470 63.9 1.9e-49 193.0
Lsi06g00137 . 82 250 CCAAT-HAP5 Transcription Factor Family AT5G63470 62.6 5.5e-49 191.4
Lsi03g00820 . 46 213 CCAAT-HAP5 Transcription Factor Family AT1G56170 82.2 2.6e-65 245.4
Lsi06g00137 . 54 218 CCAAT-HAP5 Transcription Factor Family AT1G56170 67.2 3.0e-50 195.3
Lsi06g01644 CCT,ECH 81 204 CCAAT-HAP5 Transcription Factor Family AT1G56170 74.8 5.2e-50 194.5
Lsi08g00862 . 1 135 CCAAT-HAP5 Transcription Factor Family AT5G43250 63.3 1.1e-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
OG0005355 1 1 2 2 2 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 2 1 1 1 1 1 2 1 1 40
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25561 PF00808 CBFD_NFYB_HMF 5.50E-17 CL0012 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g01644 Lsi_Chr06 FPKM 2.837209 3.780735 3.986038 2.632374 13.006346 13.987901 13.50573 1.658846 1.918243 2.158955