Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa06g02139 ATGTCGGAAGTAATTTCCGTGATGGATATTGACGACGATAATGGCAATAACGAAGCTGAAAAGGCAGTCAAGGGAAAAAACGTTGCCAGTCCTGCCGCCGCACCCGAAGGCAAAGCGATACCCTGGGTTGAGAAGTTCCGGCCTAAGTCTCTCGCTGATGTTGCTGCTCACCGTGACATTGTTGACACCATCGACAAGCTGACGAGTGAAAATAGGCTGCCACATCTCCTGTTGTACGGCCCTCCTGGTACTGGCAAGACATCAACTATTCTAGCGGTTGCTCGGAAGCTTTATGGAACAAACTACCACAACATGATTTTGGAACTGAACGCATCAGATGATAGAGGGATAGATGTTGTTAGACAGCAGATTCAGGATTTTGCAAGTACCCAAAGCTTTTCATTTGGGGCAAAAGCGTCTGTAAAATTGGTACTGTTGGATGAGGCAGATGCCATGACTAAAGATGCACAGTTTGCTTTACGAAGAGTAATTGAGAAATACACAAAAAATACAAGGTTTGCTCTTATCTGTAATCACGTCAATAAGATTATTCCAGCATTACAATCAAGGTGTACCCGCTTTCGATTTGCCCCCCTTGATAACTTTCATGTCACTGAACGACTCAGATATGTTATTGAGGCTGAGAGGTTGGACGTCACTGAGGGTGGCTTAGCTGCTCTTGTTCGACTTTGCACTGGTGATATGAGAAAGGCCTTAAATATCCTGCAGTCAACGCACATGGCTTCTCAGCATATTACTGAAGAAGCTGTATACCTTTGCACAGGGAACCCTATGCCCAAAGACATAGAGCAAATATCATTTTGGCTGCTGAATGAACCATTTTCTGACAGTTTTAAGCGAATATCTGAAATAAAGACCAGAAAAGGATTGGCTTTGGTTGATATAGTGAGAGAAGTCACTCTGTTCGTTTTTAAGATAGAGATGCCATCGAATATCAGAGTCCAGTTGATTAACGATTTGGCTGACATAGAGTACAGGATGACTTTCGGATGCAATGACAAGTTACAACTCGGATCGCTCATCTCATCTTTTACAGGAGCTAGATCTGCTCTTGTTGGTGCTGCACAGTAG 1092 43.68 MSEVISVMDIDDDNGNNEAEKAVKGKNVASPAAAPEGKAIPWVEKFRPKSLADVAAHRDIVDTIDKLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGTNYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGAKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNHVNKIIPALQSRCTRFRFAPLDNFHVTERLRYVIEAERLDVTEGGLAALVRLCTGDMRKALNILQSTHMASQHITEEAVYLCTGNPMPKDIEQISFWLLNEPFSDSFKRISEIKTRKGLALVDIVREVTLFVFKIEMPSNIRVQLINDLADIEYRMTFGCNDKLQLGSLISSFTGARSALVGAAQ* 364
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 19120488 19132171 - CsaV3_6G034260.1 Csa06g02139 533766

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa06g02139 363 Gene3D - 264 359 - -
Csa06g02139 363 Pfam Replication factor C C-terminal domain 264 350 IPR013748 -
Csa06g02139 363 Gene3D - 202 263 - -
Csa06g02139 363 SUPERFAMILY post-AAA+ oligomerization domain-like 264 352 IPR008921 GO:0003677|GO:0006260
Csa06g02139 363 CDD AAA 60 198 - -
Csa06g02139 363 SMART AAA_5 72 202 IPR003593 -
Csa06g02139 363 PANTHER REPLICATION FACTOR C / DNA POLYMERASE III GAMMA-TAU SUBUNIT 36 358 - -
Csa06g02139 363 CDD HLD_clamp_RFC 203 261 - -
Csa06g02139 363 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 40 257 IPR027417 -
Csa06g02139 363 PANTHER REPLICATION FACTOR C SUBUNIT 5 36 358 - -
Csa06g02139 363 Gene3D - 35 198 IPR027417 -
Csa06g02139 363 Pfam ATPase family associated with various cellular activities (AAA) 76 196 IPR003959 GO:0005524|GO:0016887
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa06g02139 K10756 RFC3_5; replication factor C subunit 3/5 - csv:101217230 712.99
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g00353 Csa-Chr3:2912245 Csa06g02139 Csa-Chr6:19120488 1.57E-70 dispersed
Csa04g00723 Csa-Chr4:4935236 Csa06g02139 Csa-Chr6:19120488 8.39E-09 dispersed
Csa04g01779 Csa-Chr4:17453127 Csa06g02139 Csa-Chr6:19120488 2.87E-60 dispersed
Csa06g02139 Csa-Chr6:19120488 Csa06g03254 Csa-Chr6:27413046 6.99E-15 dispersed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Csa03g02770 . 107 802 Core DNA Replication Machinery Family AT4G14700 65.9 1.7e-269 925.6
Csa06g03859 . 83 557 Core DNA Replication Machinery Family AT4G14700 62.1 9.4e-172 600.9
Csa03g02770 . 107 802 Core DNA Replication Machinery Family AT4G12620 67.8 4.4e-278 954.1
Csa06g03859 . 83 557 Core DNA Replication Machinery Family AT4G12620 64.7 3.2e-180 629.0
Csa02g01983 . 2 360 Core DNA Replication Machinery Family AT2G37560 65.2 6.3e-141 497.3
Csa05g00861 . 9 418 Core DNA Replication Machinery Family AT2G01120 65.2 7.7e-157 550.4
Csa06g00062 . 3 417 Core DNA Replication Machinery Family AT4G29910 57.1 1.5e-131 466.8
Csa02g00864 . 1 274 Core DNA Replication Machinery Family AT1G26840 63.6 8.3e-91 330.5
Csa07g01193 . 4 799 Core DNA Replication Machinery Family AT1G79150 59.1 2.3e-245 845.5
Csa03g02982 . 12 939 Core DNA Replication Machinery Family AT1G44900 75.7 0.0e+00 1347.4
Csa06g03777 . 1 575 Core DNA Replication Machinery Family AT5G46280 80.5 1.4e-267 918.7
Csa07g00021 . 1 845 Core DNA Replication Machinery Family AT2G16440 75.2 0.0e+00 1154.0
Csa02g00251 . 1 736 Core DNA Replication Machinery Family AT2G07690 78.5 0.0e+00 1115.9
Csa06g03933 . 7 840 Core DNA Replication Machinery Family AT5G44635 71.7 0.0e+00 1189.5
Csa07g01905 . 4 722 Core DNA Replication Machinery Family AT4G02060 84.7 0.0e+00 1214.5
Csa06g01433 . 38 504 Core DNA Replication Machinery Family AT2G29680 61.5 4.2e-162 568.2
Csa06g01433 . 5 465 Core DNA Replication Machinery Family AT1G07270 55.8 2.3e-138 489.2
Csa07g01526 . 1 594 Core DNA Replication Machinery Family AT3G25100 76.2 1.2e-256 882.5
Csa03g03246 . 12 792 Core DNA Replication Machinery Family AT3G09660 73.1 0.0e+00 1098.2
Csa07g00576 . 10 642 Core DNA Replication Machinery Family AT2G14050 77.6 5.4e-287 983.4
Csa02g01390 . 18 420 Core DNA Replication Machinery Family AT2G20980 55.9 1.6e-116 416.4
Csa04g01776 . 7 180 Core DNA Replication Machinery Family AT1G77320 71.3 8.0e-72 269.2
Csa02g00004 . 1 141 Core DNA Replication Machinery Family AT1G77320 56.0 6.0e-43 173.3
Csa04g02777 . 2 146 Core DNA Replication Machinery Family AT1G77320 52.4 4.4e-38 157.1
Csa07g02169 . 1 201 Core DNA Replication Machinery Family AT1G80190 68.5 1.1e-76 283.1
Csa04g00968 . 1 145 Core DNA Replication Machinery Family AT3G12530 71.7 1.8e-60 228.8
Csa06g00183 . 5 190 Core DNA Replication Machinery Family AT1G19080 67.2 5.9e-69 257.3
Csa06g00183 . 5 190 Core DNA Replication Machinery Family AT3G55490 67.2 5.9e-69 257.3
Csa03g00879 . 1 164 Core DNA Replication Machinery Family AT5G49010 62.7 8.2e-50 193.7
Csa02g01434 . 1 1545 Core DNA Replication Machinery Family AT5G67100 60.0 0.0e+00 1746.1
Csa01g00615 . 26 649 Core DNA Replication Machinery Family AT1G67630 61.9 1.5e-217 752.7
Csa06g00817 . 20 466 Core DNA Replication Machinery Family AT1G67320 64.5 3.2e-183 638.3
Csa05g03138 . 7 451 Core DNA Replication Machinery Family AT5G41880 65.8 1.3e-178 622.9
Csa06g02735 . 1 1091 Core DNA Replication Machinery Family AT5G63960 78.3 0.0e+00 1726.5
Csa03g03577 . 1 438 Core DNA Replication Machinery Family AT2G42120 74.7 2.1e-202 701.8
Csa06g00817 . 20 466 Core DNA Replication Machinery Family AT1G67320 64.5 3.2e-183 638.3
Csa05g00569 . 1 126 Core DNA Replication Machinery Family AT1G09815 61.1 2.3e-37 151.8
Csa06g01291 . 1 2096 Core DNA Replication Machinery Family AT1G08260 71.2 0.0e+00 2980.7
Csa06g01291 . 25 2203 Core DNA Replication Machinery Family AT2G27120 67.6 0.0e+00 2940.6
Csa01g02219 . 7 486 Core DNA Replication Machinery Family AT5G22110 68.7 6.8e-189 657.1
Csa06g02480 . 1 921 Core DNA Replication Machinery Family AT5G22010 63.8 6.4e-310 1060.1
Csa03g00353 . 1 332 Core DNA Replication Machinery Family AT1G63160 90.7 6.0e-173 603.6
Csa04g02134 . 1 355 Core DNA Replication Machinery Family AT5G27740 84.2 5.6e-177 617.1
Csa04g01779 . 1 331 Core DNA Replication Machinery Family AT1G21690 81.9 9.9e-152 533.1
Csa06g02139 . 1 364 Core DNA Replication Machinery Family AT1G77470 76.1 4.8e-155 544.3
Csa02g00027 . 26 618 Core DNA Replication Machinery Family AT2G06510 68.0 1.0e-250 862.8
Csa03g00107 . 32 705 Core DNA Replication Machinery Family AT2G06510 51.0 3.7e-200 694.9
Csa01g00297 . 1 623 Core DNA Replication Machinery Family AT5G08020 67.6 8.1e-245 843.2
Csa03g00107 . 10 814 Core DNA Replication Machinery Family AT5G45400 52.4 1.7e-235 812.8
Csa01g00297 . 1 618 Core DNA Replication Machinery Family AT5G61000 65.9 1.4e-239 825.9
Csa03g00107 . 5 800 Core DNA Replication Machinery Family AT4G19130 54.2 1.3e-229 793.1
Csa01g02708 . 1 404 Core DNA Replication Machinery Family AT5G26680 82.2 4.8e-188 654.1
Csa03g01027 . 1 1103 Core DNA Replication Machinery Family AT1G08840 53.0 1.6e-301 1032.3
Csa04g00346 . 1 298 Core DNA Replication Machinery Family AT2G25100 67.8 1.5e-116 416.0
Csa06g01233 . 1 802 Core DNA Replication Machinery Family AT1G08130 66.7 1.3e-298 1022.3
Csa06g01233 . 201 802 Core DNA Replication Machinery Family AT1G49250 69.2 3.1e-242 834.7
       

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