Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi05g00102 ATGGATTTGGACAGTATCGAGTGTGTATCTTCTTCAGATGGTCTCGATGAAGACGAGATCCATCTGCACCACACTCTTCATCCTTATTCACAATCTCATCATCTTCCCGAGTTGTCCGCAGCGAAGCCTCGTTATGGAAACAACAATAGCGCTGTGAATGGCCCCACTGCAACTGCGCCGGCAACTAACGTTCATGAATTGCTGGAGTGCCCTGTGTGCACTAATTCTATGTACCCTCCCATCCATCAGTGCCACAATGGACATACGTTATGTTCTACTTGTAAAACGAGGGTTCATAATCGGTGCCCAACTTGTAGACAAGAGCTTGGAGATATTAGATGCTTAGCACTGGAAAAGGTGGCAGAGTCACTTGAATTGCCTTGCAAGTATTATTCATTGGGTTGCACTGAGATATTCCCATACTACAGTAAACTTAAGCATGAGGGTTTGTGCAACTTCAGACCCTATAGTTGCCCATATGCTGGTTCAGAATGCTCTGCTGTTGGGGACATTCCTTTCCTTGTTGCCCATCTTAGGGATGATCATAAGGTGGATATGCACACTGGCTGCACATTTAACCATCGCTATGTTAAATCCAATCCAAGGGAAGTGGAGAATGCCACTTGGATGCTTACTGTTTTTCATTGTTTTGGTCAATATTTCTGCCTTCACTTTGAAGCTTTTCAGCTTGGCATGGCTCCAGTCTACATGGCTTTCCTCCGTTTCATGGGCGATGAGAATGAGGCACGAACCTACAGCTACAGCCTCGAGGTTGGTGGATATGGGCGAAAACTGATATGGGAGGGTACACCGCGAAGTATTAGAGACAGTCATCGAAAAGTCAGGGACAGCCACGATGGATTAATCATCCAAAGAAATATGGCTCTTTTCTTCTCTGGTGGGGACAGAAAGGAACTGAAGCTGAGGGTTACAGGAAGGATATGGAAGGAACAAAACCCAGATGCTGGTGTCTGCATACCAAACCTTTGTAGCTAA 996 45.68 MDLDSIECVSSSDGLDEDEIHLHHTLHPYSQSHHLPELSAAKPRYGNNNSAVNGPTATAPATNVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGDIRCLALEKVAESLELPCKYYSLGCTEIFPYYSKLKHEGLCNFRPYSCPYAGSECSAVGDIPFLVAHLRDDHKVDMHTGCTFNHRYVKSNPREVENATWMLTVFHCFGQYFCLHFEAFQLGMAPVYMAFLRFMGDENEARTYSYSLEVGGYGRKLIWEGTPRSIRDSHRKVRDSHDGLIIQRNMALFFSGGDRKELKLRVTGRIWKEQNPDAGVCIPNLCS 331
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 1766969 1771231 - Lsi05G001020.1 Lsi05g00102 662594

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi05g00102 331 PANTHER E3 UBIQUITIN-PROTEIN LIGASE 1 323 - -
Lsi05g00102 331 SUPERFAMILY RING/U-box 59 109 - -
Lsi05g00102 331 CDD RING-HC_SIAHs 68 106 - -
Lsi05g00102 331 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 123 176 IPR013083 -
Lsi05g00102 331 Gene3D Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A 177 311 IPR008974 GO:0005515
Lsi05g00102 331 CDD Sina 184 312 - -
Lsi05g00102 331 ProSiteProfiles Zinc finger SIAH-type profile. 123 183 IPR013010 GO:0008270
Lsi05g00102 331 PANTHER E3 UBIQUITIN PROTEIN LIGASE SIAH 1 323 - -
Lsi05g00102 331 ProSiteProfiles Zinc finger RING-type profile. 70 106 IPR001841 -
Lsi05g00102 331 Pfam Seven in absentia protein family 112 311 IPR018121 GO:0005737|GO:0006511|GO:0007275
Lsi05g00102 331 SUPERFAMILY TRAF domain-like 123 315 - -
Lsi05g00102 331 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 34 122 IPR013083 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi05g00102 K04506 SIAH1; E3 ubiquitin-protein ligase SIAH1 [EC:2.3.2.27] - csv:105434867 703.745
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g00102 Lsi-Chr5:1766969 Lsi09g01813 Lsi-Chr9:26927415 0 dispersed
Lsi05g00102 Lsi-Chr5:1766969 Lsi05g00103 Lsi-Chr5:1771572 0 tandem
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi11g00931 . 82 598 C3H Transcription Factor Family AT2G31510 72.6 2.1e-225 778.5
Lsi08g00360 . 86 512 C3H Transcription Factor Family AT2G31510 79.9 7.3e-215 743.4
Lsi11g00931 . 51 572 C3H Transcription Factor Family AT2G31770 53.1 9.4e-163 570.5
Lsi08g00360 . 17 505 C3H Transcription Factor Family AT2G31770 53.8 2.1e-154 542.7
Lsi11g00931 . 65 557 C3H Transcription Factor Family AT2G31760 54.7 1.2e-162 570.1
Lsi08g00360 . 74 512 C3H Transcription Factor Family AT2G31760 57.8 7.6e-154 540.8
Lsi01g01180 . 8 170 C3H Transcription Factor Family AT5G06490 53.6 6.9e-47 184.1
Lsi01g01180 . 8 170 C3H Transcription Factor Family AT5G06490 53.6 6.9e-47 184.1
Lsi03g00188 . 81 300 C3H Transcription Factor Family AT3G02290 62.7 1.3e-73 273.1
Lsi06g00932 . 2 324 C3H Transcription Factor Family AT1G11020 70.4 6.2e-130 460.7
Lsi07g00675 . 62 221 C3H Transcription Factor Family AT1G50440 75.6 3.8e-68 255.0
Lsi01g01995 . 2 324 C3H Transcription Factor Family AT5G08750 59.2 7.6e-100 360.9
Lsi03g00937 . 1 482 C3H Transcription Factor Family AT3G16090 63.4 2.8e-161 565.5
Lsi03g00188 . 77 300 C3H Transcription Factor Family AT5G38895 56.0 3.4e-70 262.3
Lsi08g01421 . 16 227 C3H Transcription Factor Family AT1G19310 67.0 1.8e-78 289.3
Lsi01g01051 . 16 225 C3H Transcription Factor Family AT1G19310 61.2 1.3e-70 263.1
Lsi01g00729 . 9 315 C3H Transcription Factor Family AT2G22120 66.8 3.4e-116 415.2
Lsi08g00926 . 33 165 C3H Transcription Factor Family AT5G07040 61.8 9.9e-44 173.3
Lsi06g01347 . 1 403 C3H Transcription Factor Family AT1G18470 71.2 4.8e-170 594.3
Lsi11g00931 . 51 572 C3H Transcription Factor Family AT2G31770 53.1 9.4e-163 570.5
Lsi08g00360 . 17 505 C3H Transcription Factor Family AT2G31770 53.8 2.1e-154 542.7
Lsi11g00931 . 65 557 C3H Transcription Factor Family AT2G31760 54.7 1.2e-162 570.1
Lsi08g00360 . 74 512 C3H Transcription Factor Family AT2G31760 57.8 7.6e-154 540.8
Lsi02g01811 . 43 278 C3H Transcription Factor Family AT5G55970 67.4 1.7e-95 346.3
Lsi01g01995 . 2 324 C3H Transcription Factor Family AT5G63780 55.6 1.4e-96 350.1
Lsi03g01745 . 1 427 C3H Transcription Factor Family AT3G58030 51.9 6.8e-103 371.3
Lsi02g01811 . 36 345 C3H Transcription Factor Family AT4G26580 61.5 2.1e-112 402.5
Lsi01g01637 . 11 446 C3H Transcription Factor Family AT5G01960 66.4 1.4e-148 523.1
Lsi11g01333 . 69 210 C3H Transcription Factor Family AT2G04240 56.5 5.4e-37 151.0
Lsi10g01089 . 1 242 C3H Transcription Factor Family AT5G19430 51.8 1.3e-61 233.4
Lsi07g00769 . 130 585 C3H Transcription Factor Family AT5G45290 52.3 4.2e-102 369.0
Lsi10g01089 . 40 242 C3H Transcription Factor Family AT5G12310 56.4 1.5e-57 219.9
Lsi06g01233 CCT 138 430 C3H Transcription Factor Family AT5G05810 54.1 5.6e-75 278.5
Lsi03g00338 . 53 219 C3H Transcription Factor Family AT5G05830 64.7 3.7e-59 224.9
Lsi03g02162 CCT,ECH 70 231 C3H Transcription Factor Family AT5G05830 61.7 4.2e-55 211.5
Lsi01g01511 CCT,ECH 36 166 C3H Transcription Factor Family AT5G05830 58.8 6.5e-40 161.0
Lsi06g00828 CCT 70 457 C3H Transcription Factor Family AT4G28890 51.6 1.6e-96 350.1
Lsi03g00188 . 81 300 C3H Transcription Factor Family AT5G15790 59.7 7.3e-72 267.3
Lsi03g00367 . 40 311 C3H Transcription Factor Family AT3G55530 79.9 6.3e-115 410.6
Lsi02g02317 . 1 273 C3H Transcription Factor Family AT1G63900 76.3 3.1e-117 418.3
Lsi05g01907 . 10 393 C3H Transcription Factor Family AT2G44580 53.3 1.0e-118 423.7
Lsi08g01421 . 25 150 C3H Transcription Factor Family AT1G74990 59.1 5.7e-40 160.6
Lsi04g01367 . 404 677 C3H Transcription Factor Family AT5G20910 63.9 1.7e-95 346.3
Lsi03g00937 . 119 475 C3H Transcription Factor Family AT1G65040 57.4 3.5e-101 365.2
Lsi01g01051 . 17 227 C3H Transcription Factor Family AT2G23780 61.6 2.2e-73 272.3
Lsi08g01421 . 6 229 C3H Transcription Factor Family AT2G23780 56.5 8.2e-68 253.8
Lsi03g01619 CCT 1 317 C3H Transcription Factor Family AT3G10810 53.9 1.6e-79 293.9
Lsi01g01756 CCT 46 283 C3H Transcription Factor Family AT3G10810 60.7 1.0e-67 254.6
Lsi09g00235 . 1 170 C3H Transcription Factor Family AT1G63840 59.0 5.8e-47 184.1
Lsi09g01587 . 1 152 C3H Transcription Factor Family AT1G63840 50.9 4.1e-40 161.4
Lsi09g00690 . 17 353 C3H Transcription Factor Family AT1G68070 65.1 1.1e-119 426.8
Lsi07g01384 . 47 376 C3H Transcription Factor Family AT1G68070 50.5 1.7e-85 313.2
Lsi04g01830 . 4 182 C3H Transcription Factor Family AT1G76410 55.2 2.2e-50 195.7
Lsi07g01038 . 54 212 C3H Transcription Factor Family AT1G76410 55.7 8.0e-45 177.2
Lsi07g01038 . 54 203 C3H Transcription Factor Family AT2G17450 56.9 1.1e-38 156.8
Lsi11g00931 . 82 598 C3H Transcription Factor Family AT2G31510 72.6 2.1e-225 778.5
Lsi08g00360 . 86 512 C3H Transcription Factor Family AT2G31510 79.9 7.3e-215 743.4
Lsi01g01180 . 7 169 C3H Transcription Factor Family AT2G35910 61.2 5.5e-53 204.5
Lsi03g01806 . 15 161 C3H Transcription Factor Family AT2G35910 54.2 4.3e-42 168.3
Lsi05g00102 . 61 318 C3H Transcription Factor Family AT2G41980 81.0 8.6e-129 456.8
Lsi05g00103 . 564 821 C3H Transcription Factor Family AT2G41980 80.2 3.3e-128 454.9
Lsi10g00990 . 27 323 C3H Transcription Factor Family AT2G41980 71.9 2.1e-127 452.2
Lsi09g01813 . 43 301 C3H Transcription Factor Family AT2G41980 75.7 1.8e-123 439.1
Lsi09g00815 . 959 1240 C3H Transcription Factor Family AT2G41980 69.9 3.2e-115 411.8
Lsi04g00034 . 106 343 C3H Transcription Factor Family AT2G41980 78.6 9.2e-115 410.2
Lsi01g01940 . 50 236 C3H Transcription Factor Family AT2G41980 85.0 2.4e-94 342.4
Lsi05g01456 . 123 397 C3H Transcription Factor Family AT3G06140 62.7 7.3e-95 344.4
Lsi03g02030 . 33 329 C3H Transcription Factor Family AT3G09770 59.4 1.2e-86 317.0
Lsi05g00445 . 123 613 C3H Transcription Factor Family AT3G26730 52.9 3.5e-144 509.2
Lsi02g00365 . 342 633 C3H Transcription Factor Family AT3G47990 70.2 6.5e-121 430.6
Lsi04g01830 . 4 183 C3H Transcription Factor Family AT1G20823 55.6 3.9e-50 194.9
Lsi07g01038 . 54 235 C3H Transcription Factor Family AT1G20823 51.3 1.5e-46 183.0
Lsi10g00332 . 4 395 C3H Transcription Factor Family AT3G18930 53.8 3.2e-86 315.8
Lsi07g01081 . 20 235 C3H Transcription Factor Family AT5G66070 74.5 4.0e-75 278.1
Lsi03g02071 . 41 310 C3H Transcription Factor Family AT5G02750 53.4 3.0e-67 252.3
Lsi06g01347 . 5 406 C3H Transcription Factor Family AT1G73950 64.4 6.5e-146 514.2
Lsi09g00690 . 15 251 C3H Transcription Factor Family AT2G01735 60.4 1.3e-74 276.6
Lsi07g01384 . 60 269 C3H Transcription Factor Family AT2G01735 52.8 2.7e-51 199.1
       

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
OG0000123 7 13 5 5 9 4 10 5 6 5 4 3 7 6 6 10 5 13 9 4 6 6 7 7 7 5 6 22 16 5 223
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi05g00102 Lsi_Chr05 FPKM 75.960716 81.981041 86.188179 84.57769 109.126884 121.78154 103.474037 105.949135 99.201439 98.276436