Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g00550 ATGTTTCAAGATGAAGGCACATCCTCCATAACTTCCTCCCCTCTCCAATTCTTCACAATGATGTCTCTTTCCCCTAAATTGGGTTCTCCATATCCATGGCTTAGAGAGCTCAAATCTGAGGAGAGGGGCTTGTATTTAATCCATTTGTTGCTTACTTGTGCAAACCATGTGGCTGTTGGTAGCCTTGACAATGCTAATCTTGCCCTTGATCAAATATCCCATCTTGCTTCTGCAGATGGTGATACAATGCAACGAATTGCGGCGTATTTTGCCGAAGCTCTCGCTGATAGGATCCTCAAGACTTGGCCTGGTCTTTATAAGGCCTTCAACTCTACTAAGATACCAATGGTTTCAGAGAAGATTCTTGTTAAGAAACTCTTCTTTGAAATGTTTCCATTCCTTAAGGTGGCTTTTGTGCTTACTAATCAAGCTATTGTTGAAGCCATGGAAGGGGAAAAGATGATTCATATAATTGATCTCAATGCTAATGAAACTGCTCAATGGCTTGCTCTTTTGCAAGTACTGAGTGTGAGGCCTGAAGGACCTCCACATTTGAGAATCACTGGAGTTCATCCACAGAAAGAGGTTCTGGATCAAATGGCTCGTAGGCTGACCGATGAAGCCGAGAAATTGGATATTCCATTTCAATTCAATTCCGTTATCAGCCAACTAGAGGATCTTGATATGGAAAAGCTTCGTGTGAAAACTGGGGAGGCTTTGGCTATCAATTCAGTTCTTCAGTTGCACACCCTTTTGGGCTGTGATAATGAAATCTTGCAAAAGCCATCTCCATCAGCAGCCAAAAGTGTAAATGGAGTTCAATACTCGAGATACCCGCATCTTAAACAAACCACCTTGAGCGAGTTACTCGACAATTGCAGTCCAAGTCCTGATTCAGTTTCGTCGTCAGCATTATCTCAGGCTAATGCGACAAAGATCGACAGCTTTTTGAATGGATTATGGAGTTTGACACCGAAGGTGATAGTCGTAACGGAACAAGATTCTAACCATAATGGCTCAACACTTATGGAGAGATTACTGGAGGCTCTCCATACATATGCAGCTATCTTTGATTGTTTGGAGTCTAACATGTCAAGAACATCCCTAGAGAGGTTGAAGTTGGAAAAGATGCTATTTGGAGAAGAGATTAAGAACATCATAGCTTGTGAGGGAGCTGAGAGGAAGGAACGACATGAAATACGAGAGAAATGGAGTCAACGGTTCGATGTCGCGGGGTTCAGGCATGTGTCTTTGAGTTATTATGGAATGCTGCAGGCTCGGAGCTTGCTGCAGGGGTATGGTTGTGGTGGTTATAGGATGAAGGAAGAGAATGGCTGTGTGATGATTTGTTGGCAAGATCGTCCATTGTTCTCAGTTTCAGCTTGGAGATGTTGTAAGTAG 1401 42.97 MFQDEGTSSITSSPLQFFTMMSLSPKLGSPYPWLRELKSEERGLYLIHLLLTCANHVAVGSLDNANLALDQISHLASADGDTMQRIAAYFAEALADRILKTWPGLYKAFNSTKIPMVSEKILVKKLFFEMFPFLKVAFVLTNQAIVEAMEGEKMIHIIDLNANETAQWLALLQVLSVRPEGPPHLRITGVHPQKEVLDQMARRLTDEAEKLDIPFQFNSVISQLEDLDMEKLRVKTGEALAINSVLQLHTLLGCDNEILQKPSPSAAKSVNGVQYSRYPHLKQTTLSELLDNCSPSPDSVSSSALSQANATKIDSFLNGLWSLTPKVIVVTEQDSNHNGSTLMERLLEALHTYAAIFDCLESNMSRTSLERLKLEKMLFGEEIKNIIACEGAERKERHEIREKWSQRFDVAGFRHVSLSYYGMLQARSLLQGYGCGGYRMKEENGCVMICWQDRPLFSVSAWRCCK 466
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 6937613 6939013 - Lsi06G005500.1 Lsi06g00550 665280

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g00550 466 Pfam GRAS domain family 46 463 IPR005202 -
Lsi06g00550 466 ProSiteProfiles GRAS family profile. 37 463 IPR005202 -
Lsi06g00550 466 PANTHER OSJNBA0084A10.13 PROTEIN-RELATED 2 465 IPR005202 -
Lsi06g00550 466 PANTHER SCARECROW-LIKE PROTEIN 3 2 465 IPR030008 GO:0003700|GO:0005634|GO:0009739
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g00550 - - - csv:101215435 863.603
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00050 Lsi-Chr4:646101 Lsi06g00550 Lsi-Chr6:6937613 0 dispersed
Lsi06g00550 Lsi-Chr6:6937613 Lsi03g00413 Lsi-Chr3:4715972 2.52E-82 dispersed
Lsi06g00550 Lsi-Chr6:6937613 Lsi10g00057 Lsi-Chr10:977937 3.98E-65 transposed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi03g02114 . 240 919 GRAS Transcription Factor Family AT2G37650 54.3 1.3e-199 693.3
Lsi02g01346 . 315 697 GRAS Transcription Factor Family AT3G46600 56.7 1.4e-126 450.3
Lsi01g00910 . 58 477 GRAS Transcription Factor Family AT3G49950 59.1 2.0e-133 472.6
Lsi07g00218 . 72 532 GRAS Transcription Factor Family AT4G36710 52.3 2.3e-120 429.5
Lsi07g00800 . 21 444 GRAS Transcription Factor Family AT5G41920 65.8 4.4e-149 524.6
Lsi01g01649 . 464 840 GRAS Transcription Factor Family AT5G41920 56.6 2.5e-115 412.5
Lsi01g00680 CCT 1 609 GRAS Transcription Factor Family AT5G66770 57.5 6.8e-175 610.9
Lsi07g00202 CCT 8 537 GRAS Transcription Factor Family AT5G66770 59.0 1.4e-164 576.6
Lsi05g00522 . 62 561 GRAS Transcription Factor Family AT1G50600 58.7 1.2e-162 570.1
Lsi10g00057 . 46 534 GRAS Transcription Factor Family AT1G50600 59.4 2.0e-162 569.3
Lsi01g00488 . 111 549 GRAS Transcription Factor Family AT1G50600 57.0 6.8e-142 501.1
Lsi04g01253 . 279 649 GRAS Transcription Factor Family AT1G50600 61.2 1.2e-133 473.8
Lsi02g02011 . 190 570 GRAS Transcription Factor Family AT1G50600 50.9 9.0e-110 394.4
Lsi07g01415 . 1 638 GRAS Transcription Factor Family AT1G63100 50.4 1.1e-162 570.5
Lsi09g00666 . 44 581 GRAS Transcription Factor Family AT1G14920 68.4 1.9e-208 722.2
Lsi09g00929 . 47 596 GRAS Transcription Factor Family AT1G14920 61.2 4.3e-184 641.3
Lsi05g00365 . 27 553 GRAS Transcription Factor Family AT1G14920 56.2 1.9e-155 546.2
Lsi07g01390 . 1 377 GRAS Transcription Factor Family AT1G55580 50.9 1.2e-102 370.5
Lsi09g00929 . 47 593 GRAS Transcription Factor Family AT1G66350 60.9 2.0e-178 622.5
Lsi09g00666 . 1 579 GRAS Transcription Factor Family AT1G66350 56.9 6.6e-174 607.4
Lsi05g00365 . 1 555 GRAS Transcription Factor Family AT1G66350 55.3 9.2e-160 560.5
Lsi10g01389 . 198 718 GRAS Transcription Factor Family AT1G07520 50.1 4.5e-141 498.4
Lsi10g00057 . 8 534 GRAS Transcription Factor Family AT5G48150 64.9 1.6e-190 662.5
Lsi05g00522 . 34 561 GRAS Transcription Factor Family AT5G48150 59.2 2.0e-175 612.5
Lsi01g00488 . 16 549 GRAS Transcription Factor Family AT5G48150 52.4 1.2e-151 533.5
Lsi04g01253 . 181 649 GRAS Transcription Factor Family AT5G48150 53.5 8.6e-139 490.7
Lsi09g00666 . 46 578 GRAS Transcription Factor Family AT2G01570 68.9 3.7e-213 738.0
Lsi09g00929 . 48 594 GRAS Transcription Factor Family AT2G01570 63.0 4.9e-189 657.9
Lsi05g00365 . 28 553 GRAS Transcription Factor Family AT2G01570 58.7 2.3e-162 569.3
Lsi09g00929 . 47 593 GRAS Transcription Factor Family AT1G66350 60.9 2.0e-178 622.5
Lsi09g00666 . 1 579 GRAS Transcription Factor Family AT1G66350 56.9 6.6e-174 607.4
Lsi05g00365 . 1 555 GRAS Transcription Factor Family AT1G66350 55.3 9.2e-160 560.5
Lsi09g00929 . 48 594 GRAS Transcription Factor Family AT3G03450 61.5 5.5e-179 624.4
Lsi09g00666 . 10 578 GRAS Transcription Factor Family AT3G03450 58.1 1.9e-171 599.4
Lsi05g00365 . 28 553 GRAS Transcription Factor Family AT3G03450 56.5 1.8e-153 539.7
Lsi09g00929 . 47 596 GRAS Transcription Factor Family AT5G17490 56.4 6.1e-159 557.8
Lsi09g00666 . 42 578 GRAS Transcription Factor Family AT5G17490 57.2 8.2e-156 547.4
Lsi05g00365 . 29 553 GRAS Transcription Factor Family AT5G17490 52.1 8.9e-134 474.2
Lsi02g02011 . 1 570 GRAS Transcription Factor Family AT1G21450 57.4 6.9e-175 610.9
Lsi10g00057 . 159 534 GRAS Transcription Factor Family AT1G21450 52.5 2.8e-115 412.9
Lsi05g00522 . 185 561 GRAS Transcription Factor Family AT1G21450 53.2 6.1e-115 411.8
Lsi02g01346 . 323 697 GRAS Transcription Factor Family AT5G59450 57.0 2.2e-128 456.4
Lsi03g02114 . 470 919 GRAS Transcription Factor Family AT5G59450 50.3 2.2e-123 439.9
Lsi01g00488 . 1 549 GRAS Transcription Factor Family AT4G17230 58.5 6.1e-175 610.9
Lsi10g00057 . 15 534 GRAS Transcription Factor Family AT4G17230 51.6 1.1e-144 510.4
Lsi05g00522 . 66 561 GRAS Transcription Factor Family AT4G17230 52.1 3.3e-136 482.3
Lsi04g01253 . 276 649 GRAS Transcription Factor Family AT4G17230 52.9 2.2e-111 399.8
Lsi10g00057 . 155 534 GRAS Transcription Factor Family AT2G04890 71.1 1.4e-158 556.2
Lsi05g00522 . 165 561 GRAS Transcription Factor Family AT2G04890 59.9 6.3e-143 504.2
Lsi04g01253 . 263 649 GRAS Transcription Factor Family AT2G04890 55.7 5.7e-128 454.5
Lsi01g00488 . 169 549 GRAS Transcription Factor Family AT2G04890 58.5 2.7e-125 445.7
Lsi06g00550 . 1 466 GRAS Transcription Factor Family AT1G50420 66.1 2.8e-174 608.6
Lsi04g00050 . 24 485 GRAS Transcription Factor Family AT1G50420 60.9 3.4e-156 548.5
Lsi07g01305 . 430 793 GRAS Transcription Factor Family AT4G00150 55.7 5.4e-105 378.6
Lsi07g00202 CCT 9 537 GRAS Transcription Factor Family AT3G50650 53.5 4.7e-146 515.0
Lsi01g01649 . 237 838 GRAS Transcription Factor Family AT3G54220 63.7 3.9e-203 704.9
Lsi07g00800 . 77 442 GRAS Transcription Factor Family AT3G54220 64.5 3.4e-135 479.2
Lsi01g00897 . 101 492 GRAS Transcription Factor Family AT4G37650 67.8 2.0e-157 552.7
Lsi10g00554 . 126 508 GRAS Transcription Factor Family AT4G37650 56.2 1.6e-119 426.8
       

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
OG0002014 2 5 1 2 2 2 3 2 2 1 2 2 3 2 2 2 2 4 3 2 2 2 2 2 2 2 2 3 2 0 65
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25481 PF03514 GRAS 2.30E-140 CL0063 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g00550 Lsi_Chr06 FPKM 0.898244 0.789228 44.868 45.760815 5.203123 6.099308 4.825843 2.330482 2.017132 1.813463