Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g00447 ATGTCGGAAGTAATTGCCGTGATGGATATTGACGACGATAACGGCAACAAAGAAGCTGAAAAGCCAGTCAAGGGCAAAAACGTTGCCAGTCCTGCCGCCACACCGGAGGGCAAAGCAATACCCTGGGTCGAGAAGTTCCGCCCTAAGTCTCTCGCTGATGTTGCTGCTCACCGCGACATTGTGGACACCATCGACAAGCTGACGAGTGAGAATAGGTTGCCACATCTCCTGTTGTACGGCCCTCCTGGCACTGGCAAGACATCAACTATTCTAGCGGTTGCTCGCAAGCTTTATGGAACAAACTACCACAACATGATTCTGGAGCTGAACGCATCAGATGATAGAGGGATAGATGTTGTCAGACAGCAGATTCAGGATTTTGCAAGTACCCAAAGCTTTTCATTTGGGGCAAAGGCGTCCGTAAAATTGGTATTATTGGACGAGGCAGATGCCATGACTAAAGATGCACAGTTTGCTTTACGTAGAGTAATTGAGAAATACACGAAAAATACAAGATTTGCTCTTATCTGTAATCACGTCAATAAGATTATTCCAGCATTACAATCAAGGTGTACCCGCTTTCGATTTGCTCCCCTTGACAACTTTCATGTCACTGAACGACTCAAATATGTTATTGAGGCTGAGAGGTTGGATGTCACTGAGAGTGGCTTAGCTGCCCTTGTTCGACTTTGCAGTGGTGATATGAGAAAGGCCTTAAATATTCTGCAGTCAACGCATATGGCTTCACAGCATATTACTGAAGAAGCTGTATACCTTTGCACAGGAAATCCAATGCCTAAAGACATAGAGCAAATATCATTTTGGCTGCTGAATGAACCATTTTCTGACAGTTTTAAGCGAATATCTGAAATAAAGACCAGAAAAGGATTGGCTTTGGTTGATATAGTGAGAGAAGTCACTCTGTTCGTTTTTAAGATAAAGATGCCATCGGATATCAGAGTCCAGTTGATTAATGATCTGGCTGACATAGAGTACCGGATGAGTTTCGGATGCAATGACAAGTTACAACTTGGATCGCTCATCTCATCTTTTACACGAGCTAGATCTGCACTCGTCGCTGCTGCACAGTAG 1092 44.14 MSEVIAVMDIDDDNGNKEAEKPVKGKNVASPAATPEGKAIPWVEKFRPKSLADVAAHRDIVDTIDKLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGTNYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGAKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNHVNKIIPALQSRCTRFRFAPLDNFHVTERLKYVIEAERLDVTESGLAALVRLCSGDMRKALNILQSTHMASQHITEEAVYLCTGNPMPKDIEQISFWLLNEPFSDSFKRISEIKTRKGLALVDIVREVTLFVFKIKMPSDIRVQLINDLADIEYRMSFGCNDKLQLGSLISSFTRARSALVAAAQ 363
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 12109074 12114841 + Lsi08G004470.1 Lsi08g00447 668373

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g00447 363 SUPERFAMILY post-AAA+ oligomerization domain-like 264 354 IPR008921 GO:0003677|GO:0006260
Lsi08g00447 363 Pfam Replication factor C C-terminal domain 264 350 IPR013748 -
Lsi08g00447 363 CDD AAA 60 198 - -
Lsi08g00447 363 SMART AAA_5 72 202 IPR003593 -
Lsi08g00447 363 CDD HLD_clamp_RFC 203 261 - -
Lsi08g00447 363 Gene3D - 264 361 - -
Lsi08g00447 363 PANTHER REPLICATION FACTOR C / DNA POLYMERASE III GAMMA-TAU SUBUNIT 36 359 - -
Lsi08g00447 363 PANTHER REPLICATION FACTOR C SUBUNIT 5 36 359 - -
Lsi08g00447 363 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 40 257 IPR027417 -
Lsi08g00447 363 MobiDBLite consensus disorder prediction 10 24 - -
Lsi08g00447 363 MobiDBLite consensus disorder prediction 1 34 - -
Lsi08g00447 363 Gene3D - 35 198 IPR027417 -
Lsi08g00447 363 Pfam ATPase family associated with various cellular activities (AAA) 76 196 IPR003959 GO:0005524|GO:0016887
Lsi08g00447 363 Gene3D - 202 263 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g00447 K10756 RFC3_5; replication factor C subunit 3/5 - csv:101217230 690.649
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g02414 Lsi-Chr4:31276383 Lsi08g00447 Lsi-Chr8:12109074 3.50E-29 dispersed
Lsi05g00768 Lsi-Chr5:10801910 Lsi08g00447 Lsi-Chr8:12109074 2.79E-15 dispersed
Lsi07g00785 Lsi-Chr7:8631913 Lsi08g00447 Lsi-Chr8:12109074 1.35E-11 dispersed
Lsi07g01383 Lsi-Chr7:20093678 Lsi08g00447 Lsi-Chr8:12109074 7.96E-35 dispersed
Lsi08g00447 Lsi-Chr8:12109074 Lsi10g01127 Lsi-Chr10:15509515 1.39E-12 dispersed
       

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
Vvi18g244 . . . . Bpe02g00056 . . . Cmo04g02487 Cmo15g00675 . . . . Sed03g0420 . . Bhi04g01892 Tan11g1257 Cmetu03g1930 . Hepe02g2711 . Lcy10g1238 Cla08g00608 Cam08g1021 Cec08g0611 Cco08g0722 Clacu08g0732 . Cre08g0540 . . Cone17ag1292 Cone20ag0436 . . . Cme03g00527 . Blo18g00180 Bda11g00726 Bda13g01478 . Bpe14g00388 Bma01g00807 Bma02g00213 . . . . . Car04g02301 Car15g00613 Cpe01g02062 . . . . . . . . . . . . . . . Lsi08g00447 . Chy03g00359 .
       

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
OG0006625 1 1 1 2 1 1 2 1 1 2 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 2 1 1 38
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi08g00447 Lsi_Chr08 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0