Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g00008 ATGTCTCGAAGATCGACTAGGTTAGTGGAAAAGGCCAATGAATATTTAGAGAAAACCACAAATAGTGAAACTGCAAAATCATCCAGAACTAAGAGATATGGTGTATCTGGGGGAAACCTTAAATCTTCTAGGAGGAGTCAGAAGTGGACACGAAATAATGAGATTAAGCTAAATGAAGTTATGTTTCCTCCTCCATCCTTTGAGCAATTAGAGGGAAAGAAGAGAAAGACATATAGTAAGAGGTCAATGGTCACAAGAACAACTGCTTCAAAGAAGTTTAGGTCCGAGGAAGGGATCAACAAGAAAGGGAGTGGGAGATTAAGGAAGAGGGTGTATTATCAAAAAGTGGTTTTTGATGGTGGTGAATTTGAGGTTGGGGACGATGTTTATGTGAGGAGGAGAGAAGATGCAAGCTCTGACGATGAAGACCCCGAAGTTGAGGAGTGTAGAGTGTGCTTTAAGTCTGGAAAGGCTATAATGATCGAGTGTGATGATTGTCTTGGTGGTTTTCATTTGAAGTGTTTGAAGCCGCCAATGAAGGTAATCCCTGAGGGAGATTGGATTTGTGGGTTTTGTGAGGCCGCTAAAATGGGCAAAGAGGTTCAGTTGCCAAAACCTCCGGAGGGTAAAAAACGGGTTAGGACAATGAGGGAGAAGCTTCTAGCAGGTGATTTGTGGGCTGCTCACATTGAAAGTTTATGGAAAGAAGTAAATGGTAACCATCGGTGTAAAGTTAGATGGTATATAATCCCAGAAGAGACCGCAGCTGGAAGGCAACCACATAACTTGAAGAGAGAGCTTTATTTAACTAATGATTATGCAGATATTGAGCAAGGCGTGAGACCTCCAATTAGGCATGTATTCTCGAGGAAGGGTAAAAGAGGAATTGCACTCAAGATGGTTAGAGGAGCAATAGGAAGACTGCATATGATAGTATTGCGTATATGCAACAAGGGTCCTCCGGTGGAAGAACTGGTGGTCAAGAAGAGAGCTGTGGGGATGGAATCGCTTCTTAGACTGTGTGAAGTCATGAATCCTAAAGACTATTATAATGCCAAGGAAGGGGATGATATATTTTTATGTGAGTATGAATATGACGTTCGTTGGCATAGTTTCAAGAGGTTAGCTGAAATTGATAAAGAAGAGGATAGTGAAGCAGTTGATAGTGACAAAGAGTGGAAGTTGGACCAGAATGCAGACTCTGATTCAGAAGGTGATGTGGAATATGAAGAAGAGAGAGCACAAATTTTACAATCTCGAAACTACTCAAGATCAACCCATGAATTGGCCGCAGTATGA 1299 41.65 MSRRSTRLVEKANEYLEKTTNSETAKSSRTKRYGVSGGNLKSSRRSQKWTRNNEIKLNEVMFPPPSFEQLEGKKRKTYSKRSMVTRTTASKKFRSEEGINKKGSGRLRKRVYYQKVVFDGGEFEVGDDVYVRRREDASSDDEDPEVEECRVCFKSGKAIMIECDDCLGGFHLKCLKPPMKVIPEGDWICGFCEAAKMGKEVQLPKPPEGKKRVRTMREKLLAGDLWAAHIESLWKEVNGNHRCKVRWYIIPEETAAGRQPHNLKRELYLTNDYADIEQGVRPPIRHVFSRKGKRGIALKMVRGAIGRLHMIVLRICNKGPPVEELVVKKRAVGMESLLRLCEVMNPKDYYNAKEGDDIFLCEYEYDVRWHSFKRLAEIDKEEDSEAVDSDKEWKLDQNADSDSEGDVEYEEERAQILQSRNYSRSTHELAAV 432
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 225596 230068 + Lsi08G000080.1 Lsi08g00008 667934

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g00008 432 MobiDBLite consensus disorder prediction 383 412 - -
Lsi08g00008 432 ProSitePatterns Zinc finger PHD-type signature. 149 192 IPR019786 -
Lsi08g00008 432 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 140 213 IPR013083 -
Lsi08g00008 432 Pfam PHD-finger 149 194 IPR019787 -
Lsi08g00008 432 ProSiteProfiles BAH domain profile. 205 376 IPR001025 GO:0003682
Lsi08g00008 432 Gene3D - 327 430 IPR043151 -
Lsi08g00008 432 SUPERFAMILY FYVE/PHD zinc finger 135 198 IPR011011 -
Lsi08g00008 432 MobiDBLite consensus disorder prediction 1 50 - -
Lsi08g00008 432 MobiDBLite consensus disorder prediction 383 401 - -
Lsi08g00008 432 Gene3D - 86 279 IPR043151 -
Lsi08g00008 432 ProSiteProfiles Zinc finger PHD-type profile. 146 195 IPR019787 -
Lsi08g00008 432 MobiDBLite consensus disorder prediction 18 46 - -
Lsi08g00008 432 PANTHER ORIGIN RECOGNITION COMPLEX SUBUNIT 1 86 424 IPR020793 -
Lsi08g00008 432 MobiDBLite consensus disorder prediction 1 17 - -
Lsi08g00008 432 PANTHER CELL DIVISION CONTROL PROTEIN 6-RELATED 86 424 - -
Lsi08g00008 432 SMART PHD_3 148 193 IPR001965 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g00008 K02603 ORC1; origin recognition complex subunit 1 - csv:101214082 639.032
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi08g00008 Lsi-Chr8:225596 Lsi01g00030 Lsi-Chr1:336558 1.11E-06 dispersed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi08g00008 . 108 393 Core DNA Replication Machinery Family AT4G14700 52.6 2.6e-76 283.9
Lsi08g00009 . 1 140 Core DNA Replication Machinery Family AT4G14700 68.1 5.7e-55 213.0
Lsi08g00008 . 108 393 Core DNA Replication Machinery Family AT4G12620 55.3 1.1e-82 305.1
Lsi08g00009 . 1 140 Core DNA Replication Machinery Family AT4G12620 69.5 6.8e-56 216.1
Lsi08g01455 . 2 372 Core DNA Replication Machinery Family AT2G37560 63.6 2.3e-138 488.8
Lsi04g01057 . 6 378 Core DNA Replication Machinery Family AT2G01120 63.4 1.4e-134 476.5
Lsi09g01574 . 3 536 Core DNA Replication Machinery Family AT4G29910 58.6 8.6e-175 610.5
Lsi11g00986 . 1 283 Core DNA Replication Machinery Family AT1G26840 65.4 1.7e-94 342.8
Lsi11g01609 . 80 903 Core DNA Replication Machinery Family AT1G79150 54.4 4.0e-229 791.6
Lsi03g01268 . 8 940 Core DNA Replication Machinery Family AT1G44900 75.7 0.0e+00 1352.8
Lsi01g00160 . 107 687 Core DNA Replication Machinery Family AT5G46280 78.6 4.3e-259 890.6
Lsi11g01129 . 1 931 Core DNA Replication Machinery Family AT2G16440 69.3 0.0e+00 1105.9
Lsi11g00378 . 1087 1862 Core DNA Replication Machinery Family AT2G07690 73.6 0.0e+00 1080.9
Lsi01g00004 . 7 923 Core DNA Replication Machinery Family AT5G44635 61.5 2.1e-310 1061.6
Lsi02g02475 . 4 722 Core DNA Replication Machinery Family AT4G02060 85.1 0.0e+00 1218.0
Lsi10g01424 . 36 481 Core DNA Replication Machinery Family AT2G29680 50.6 7.8e-127 451.1
Lsi10g01424 . 37 483 Core DNA Replication Machinery Family AT1G07270 52.1 1.7e-120 429.9
Lsi02g02100 . 758 1350 Core DNA Replication Machinery Family AT3G25100 76.4 2.5e-257 884.8
Lsi03g02053 . 26 672 Core DNA Replication Machinery Family AT3G09660 66.3 2.9e-237 818.5
Lsi03g02054 . 12 181 Core DNA Replication Machinery Family AT3G09660 81.2 6.6e-72 269.2
Lsi03g00736 . 22 377 Core DNA Replication Machinery Family AT2G14050 67.4 9.9e-151 530.8
Lsi03g00738 . 16 198 Core DNA Replication Machinery Family AT2G14050 53.0 2.5e-45 180.6
Lsi10g00493 . 1890 2300 Core DNA Replication Machinery Family AT2G20980 55.5 8.0e-119 424.1
Lsi02g02726 . 1 200 Core DNA Replication Machinery Family AT1G80190 67.3 9.5e-76 280.0
Lsi03g00967 . 1 145 Core DNA Replication Machinery Family AT3G12530 73.1 4.9e-61 230.7
Lsi03g00307 . 5 188 Core DNA Replication Machinery Family AT1G19080 68.5 1.9e-70 262.3
Lsi03g00307 . 5 188 Core DNA Replication Machinery Family AT3G55490 68.5 1.9e-70 262.3
Lsi05g02052 . 6 171 Core DNA Replication Machinery Family AT5G49010 57.2 1.3e-45 179.9
Lsi10g00533 . 1 1707 Core DNA Replication Machinery Family AT5G67100 52.7 0.0e+00 1597.8
Lsi02g00133 . 2 572 Core DNA Replication Machinery Family AT1G67630 53.8 5.1e-181 631.3
Lsi09g01731 . 1 409 Core DNA Replication Machinery Family AT1G67320 59.1 4.2e-162 568.2
Lsi08g00158 . 10 382 Core DNA Replication Machinery Family AT5G41880 58.0 2.9e-125 445.7
Lsi08g00157 . 57 255 Core DNA Replication Machinery Family AT5G41880 60.4 1.1e-76 284.3
Lsi01g01175 . 1 968 Core DNA Replication Machinery Family AT5G63960 69.8 0.0e+00 1424.5
Lsi03g01734 . 1 550 Core DNA Replication Machinery Family AT2G42120 57.6 1.9e-177 619.0
Lsi09g01731 . 1 409 Core DNA Replication Machinery Family AT1G67320 59.1 4.2e-162 568.2
Lsi10g01177 . 1 1996 Core DNA Replication Machinery Family AT1G08260 64.8 0.0e+00 2626.3
Lsi02g01714 . 8 1499 Core DNA Replication Machinery Family AT1G08260 65.4 0.0e+00 1877.4
Lsi02g01713 . 15 187 Core DNA Replication Machinery Family AT1G08260 55.6 1.1e-44 180.3
Lsi10g01177 . 25 2103 Core DNA Replication Machinery Family AT2G27120 62.0 0.0e+00 2599.7
Lsi02g01714 . 31 1499 Core DNA Replication Machinery Family AT2G27120 63.2 0.0e+00 1778.5
Lsi02g01713 . 24 187 Core DNA Replication Machinery Family AT2G27120 53.9 5.6e-41 167.9
Lsi02g00021 . 74 324 Core DNA Replication Machinery Family AT5G22110 78.1 5.8e-119 424.9
Lsi02g00022 . 7 218 Core DNA Replication Machinery Family AT5G22110 59.2 2.6e-58 223.4
Lsi10g01127 . 71 1019 Core DNA Replication Machinery Family AT5G22010 59.9 1.9e-285 978.8
Lsi07g01383 . 54 433 Core DNA Replication Machinery Family AT1G63160 70.3 3.4e-139 491.5
Lsi01g01707 . 1 357 Core DNA Replication Machinery Family AT5G27740 79.3 1.3e-165 579.3
Lsi04g02414 . 36 285 Core DNA Replication Machinery Family AT1G21690 62.5 1.1e-97 353.6
Lsi08g00447 . 1 363 Core DNA Replication Machinery Family AT1G77470 76.6 1.5e-156 549.3
Lsi11g00167 . 26 618 Core DNA Replication Machinery Family AT2G06510 68.8 2.3e-253 871.7
Lsi07g01137 . 32 704 Core DNA Replication Machinery Family AT2G06510 51.0 1.2e-198 689.9
Lsi06g01410 . 1 623 Core DNA Replication Machinery Family AT5G08020 68.6 2.7e-251 864.8
Lsi07g01137 . 10 813 Core DNA Replication Machinery Family AT5G45400 52.5 4.0e-232 801.6
Lsi06g01410 . 1 618 Core DNA Replication Machinery Family AT5G61000 67.4 2.7e-246 848.2
Lsi07g01137 . 5 799 Core DNA Replication Machinery Family AT4G19130 54.8 1.1e-228 790.0
Lsi06g00020 . 1 385 Core DNA Replication Machinery Family AT5G26680 78.8 2.2e-175 612.1
Lsi07g00045 . 42 374 Core DNA Replication Machinery Family AT2G25100 59.5 7.1e-106 380.6
Lsi10g01227 . 44 804 Core DNA Replication Machinery Family AT1G08130 69.2 3.8e-298 1020.8
Lsi10g01227 . 204 804 Core DNA Replication Machinery Family AT1G49250 69.6 5.9e-244 840.5
       

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
OG0002386 0 17 2 1 1 1 1 1 1 2 1 1 1 1 5 1 1 1 1 1 2 1 1 1 2 2 1 1 3 2 57
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25702 PF00628 PHD 1.00E-08 CL0390 Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi08g00008 Lsi_Chr08 FPKM 92.105461 109.430046 22.020658 24.623121 5.434498 5.6011 3.754688 28.964535 34.341171 33.306396