Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cme06g02413 ATGGCAGCGTCAATGGCGTCGTCTAAGCTAACGGAAGGAGCAGTGATGGTGATATGCAAGAGGGAATCTTCTGCAGAGACGTTCCAGCCGATTTTACAAGTAATTGACTTAAAATTGGTTAACACTTCGCAACAATCAGGTAGCGAGAGGTTCAGATTGTTGGTTTCTGATGGAACCCATTTCCAGCAAGGAATGCTGGGCACTCAGCTCAACGAATTGGTTAAGTCCGGGAAGTTACAGAAAGGTTCCATTGTTCGACTGCGGCAGTATGTTTGTAACCCCGTTCAAGAACGCCTGATTATAATTGTCATTGAGTTGGATGTGATAGAGGAAGTGTGTGACATTATTGGTGAACCTGTATCTGCCACAAGATCGTCAGCTAGTGCATTTAGTGGAAATCCCCTATCCTCTGTGGGAGGCCTGGGGGCTTCACCTGGCAGTGGAATGATTGGTAAGGGAAATGTATCGGGTGCGTCTTTTGAACAGCCTAAAGGGAATCAATCACATGTACCACACATGGGATCTTATTCTAATCCTCCTGAGACTGGAAGATTCTCTGCATCAATTGCGCCTCCTCCTTACTCTAAGACGGAACCTGGATCAAGGTTTAATGGGTCATCTCCTTTAACGGGATCATATGGTGATCAGAAGATGGCATATCATAACAGCGGATCAGATATGCCCAGGCCACCTCTAAATTCTAATGCCTATGCCCGTCCTCAGCCAATGTATCAGCAGCCACCTTCAATGTACAGTAACAGAGGACCAATAGCAAAAAATGAAGCTGCCCCAAGGATAATGCCTATTTCTGCTCTGAACCCTTACCAAGGTAGGTGGACAATAAAGGCTCGAGTTACTTTAAAAGGAGAACTTAGACACTACAACAATCCTCGTGGTGATGGGAAAGTGTTTTCATTTGATTTACTTGATGCTTACCGTGGAGAAATACGAGTAACATGCTTCAATACAGTAGCTGATCAGTTTTACAACCAGATTGAATCTGGTAAAGTCTACTTCATTTCTAAAGGAAGCCTGAAACCTGCTCAAAAGAACTATAACCATCTCAAAAATGACTATGAAATATTTCTTGAAAACACATCAACAATCCAACCTTGCTTTGAGGATGATCAATCAATCCCCCAGCAGCAGTTTCATTTCCATCAGATTGGTGAGATTGAGGGCATGGACAGCAACAGTGTTGTAGATGTAATTGGTGTTGTTTCTTCTATTAATCCTGCAACTTCTTTGATGAGAAAAAATGGTACTGAGACTCAGAAGAGATCCCTTCAGTTGAAAGATATGTCTGGCCGAAGTGTTGAATTGACTCTTTGGGGGAACTTCTGTCAAGCGGAAGGGCAAAGGTTGCAAAATATGTGTGACTCGGGGTTGTTCCCAGTTTTGGCCGTGAAATCTAGTAGAGTGAGTGACTTCAATGGGAAGGCAGTGGGAACCATTTCTACAAGTCAGCTCTTTATAGAGCCAGATTTCCCTGAGGCTCATTCGCTGAGAGAATGGTTTGAAAGGGAAGGGAGGAGTACTCTTTCTGTCTCTATATCCAGGGAAGTTGCAAATGTAGGCAGGACAGATGTCAGGAAGACCATATCTCAAATTAAAGATGAGAGGTTAGGAACCTCTGAGAAGCCAGATTGGATCACGGTTAGTGCCACTGTTTCATTCATTAAGGTTGACAATTTCTGCTACACAGCATGTCCTATCATGATAGGGGACCGACAATGTAGCAAAAAAGTTACAAATAATGGAGATGGAAAATGGAGATGTGACAGGTGTGATCAGTCTGTTGACGAATGTGACTACAGGTATATACTTCAGCTGCAAATACAGGATCATACTGGCTTAACTTGGGTAACTGCCTTTCAAGAAGGTGGTGAGGAGATCATGGGCATACCTGCAAAAAGATTATATTATTTGAAGTATGAAGAGCAAGATGATGAGAAATTTGCAGAAATCATCCGGAAGGTTCTTTTTACAAAATTTATAATGAAGTTAAAAATAAAGGAAGAGACTTTTAGTGATGAGCAGAGAGTAAGATCAACAGTGGTAAAAGCAGAAAGCATTGATTTTTCAAGCGAATCCAGATTTCTTCTAAACTTGATGGAGAAACTCAAGCCAGAGAACAGTAGTTCTACTACCCCAAAAGCAGAAAGCACCATACATAATCTCGGTTTTCGTGACACCGCTTCTGAGAATATTGGTGGTGGACAGTTCGTGTCACCCATTCGAAATAGTACCAATTTCAGCAGAGAATATGGTACACCGAACCAAGGTGTTCAGTATGGGAACCAGTACAGTAGCTCTAGGCCTTCTCCATCCACACCGCTTAACTCGAACACATACTGCAACAGCTGTGGGGGTTCTGGCCACAGCTCAATGAACTGCCCGAGTATCATGAGCGGTCCTGCACTGTCTGTTGGAGGTGGGATGTATTCAAATCAAGCTTCTGGTCCTTCGGCTGGTACCTCTGGTGAATGCTTCAAATGCCATCAAACCGGGCATTGGGCTAGGGATTGCCCTGGTTTGGCCAATGTCCCTCCAGCTTATGGTAACCGTGGCTTCACGGCTAGGTGA 2586 43.62 MAASMASSKLTEGAVMVICKRESSAETFQPILQVIDLKLVNTSQQSGSERFRLLVSDGTHFQQGMLGTQLNELVKSGKLQKGSIVRLRQYVCNPVQERLIIIVIELDVIEEVCDIIGEPVSATRSSASAFSGNPLSSVGGLGASPGSGMIGKGNVSGASFEQPKGNQSHVPHMGSYSNPPETGRFSASIAPPPYSKTEPGSRFNGSSPLTGSYGDQKMAYHNSGSDMPRPPLNSNAYARPQPMYQQPPSMYSNRGPIAKNEAAPRIMPISALNPYQGRWTIKARVTLKGELRHYNNPRGDGKVFSFDLLDAYRGEIRVTCFNTVADQFYNQIESGKVYFISKGSLKPAQKNYNHLKNDYEIFLENTSTIQPCFEDDQSIPQQQFHFHQIGEIEGMDSNSVVDVIGVVSSINPATSLMRKNGTETQKRSLQLKDMSGRSVELTLWGNFCQAEGQRLQNMCDSGLFPVLAVKSSRVSDFNGKAVGTISTSQLFIEPDFPEAHSLREWFEREGRSTLSVSISREVANVGRTDVRKTISQIKDERLGTSEKPDWITVSATVSFIKVDNFCYTACPIMIGDRQCSKKVTNNGDGKWRCDRCDQSVDECDYRYILQLQIQDHTGLTWVTAFQEGGEEIMGIPAKRLYYLKYEEQDDEKFAEIIRKVLFTKFIMKLKIKEETFSDEQRVRSTVVKAESIDFSSESRFLLNLMEKLKPENSSSTTPKAESTIHNLGFRDTASENIGGGQFVSPIRNSTNFSREYGTPNQGVQYGNQYSSSRPSPSTPLNSNTYCNSCGGSGHSSMNCPSIMSGPALSVGGGMYSNQASGPSAGTSGECFKCHQTGHWARDCPGLANVPPAYGNRGFTAR 861
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 31259518 31263651 + MELO3C013797.2.1 Cme06g02413 331562

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cme06g02413 861 CDD RPA1_DBD_A 268 371 - -
Cme06g02413 861 MobiDBLite consensus disorder prediction 159 184 - -
Cme06g02413 861 Pfam OB-fold nucleic acid binding domain 280 364 IPR004365 GO:0003676
Cme06g02413 861 PANTHER REPLICATION FACTOR A 1, RFA1 9 743 IPR004591 GO:0003677|GO:0005634|GO:0006260|GO:0006281|GO:0006310
Cme06g02413 861 SUPERFAMILY Nucleic acid-binding proteins 531 708 IPR012340 -
Cme06g02413 861 CDD RPA1_DBD_C 534 707 IPR013955 -
Cme06g02413 861 Pfam Replication factor-A C terminal domain 550 701 IPR013955 -
Cme06g02413 861 Gene3D - 8 123 IPR012340 -
Cme06g02413 861 CDD RPA1N 13 109 IPR007199 GO:0003677|GO:0005634|GO:0006260
Cme06g02413 861 ProSiteProfiles Zinc finger CCHC-type profile. 786 801 IPR001878 GO:0003676|GO:0008270
Cme06g02413 861 Gene3D - 378 516 IPR012340 -
Cme06g02413 861 ProSiteProfiles Zinc finger CCHC-type profile. 830 844 IPR001878 GO:0003676|GO:0008270
Cme06g02413 861 Pfam Replication protein A OB domain 389 492 IPR031657 -
Cme06g02413 861 TIGRFAM rpa1: replication factor-a protein 1 (rpa1) 224 707 IPR004591 GO:0003677|GO:0005634|GO:0006260|GO:0006281|GO:0006310
Cme06g02413 861 Gene3D - 265 374 IPR012340 -
Cme06g02413 861 SUPERFAMILY Retrovirus zinc finger-like domains 811 850 IPR036875 GO:0003676|GO:0008270
Cme06g02413 861 Pfam Replication factor-A protein 1, N-terminal domain 10 110 IPR007199 GO:0003677|GO:0005634|GO:0006260
Cme06g02413 861 MobiDBLite consensus disorder prediction 737 780 - -
Cme06g02413 861 CDD RPA1_DBD_B 400 507 - -
Cme06g02413 861 MobiDBLite consensus disorder prediction 199 219 - -
Cme06g02413 861 PANTHER REPLICATION PROTEIN A SUBUNIT 9 743 - -
Cme06g02413 861 MobiDBLite consensus disorder prediction 735 780 - -
Cme06g02413 861 MobiDBLite consensus disorder prediction 148 241 - -
Cme06g02413 861 SMART c2hcfinal6 829 845 IPR001878 GO:0003676|GO:0008270
Cme06g02413 861 SMART c2hcfinal6 785 801 IPR001878 GO:0003676|GO:0008270
Cme06g02413 861 Gene3D - 517 708 IPR012340 -
Cme06g02413 861 SUPERFAMILY Nucleic acid-binding proteins 8 117 IPR012340 -
Cme06g02413 861 SUPERFAMILY Nucleic acid-binding proteins 384 511 IPR012340 -
Cme06g02413 861 SUPERFAMILY Nucleic acid-binding proteins 265 378 IPR012340 -
Cme06g02413 861 Pfam Zinc knuckle 829 844 IPR001878 GO:0003676|GO:0008270
Cme06g02413 861 Gene3D - 781 849 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cme06g02413 K07466 RFA1, RPA1, rpa; replication factor A1 - csv:101211358 1679.07
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cme02g01827 Cme-Chr2:25012380 Cme06g02413 Cme-Chr6:31259518 4.61E-87 dispersed
Cme05g02064 Cme-Chr5:28901439 Cme06g02413 Cme-Chr6:31259518 3.04E-19 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
Vvi2g886 . . . . . Bpe07g00251 . . Cmo06g00609 Cmo16g01260 . . . . . Cpe14g01003 . . . . . . . . Cla10g00108 Cam10g0103 Cec10g0110 Cco10g0112 Clacu10g0107 Cmu10g0955 Cre10g0366 . . . . Lsi07g01137 . . Cme06g02413 . . . . . . . Bma12g00253 . . . Cma06g00602 Cma16g01216 Car06g00537 Car16g01142 . . . . . . . . . . . . . . . . . Csa03g00107 Chy06g02198 .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cme08g00074 . 94 784 Core DNA Replication Machinery Family AT4G14700 66.2 6.8e-266 913.7
Cme08g00074 . 94 784 Core DNA Replication Machinery Family AT4G12620 68.1 8.9e-274 939.9
Cme03g02018 . 2 360 Core DNA Replication Machinery Family AT2G37560 65.7 1.7e-141 499.2
Cme10g01189 . 9 418 Core DNA Replication Machinery Family AT2G01120 65.0 5.7e-155 544.3
Cme11g02167 . 3 536 Core DNA Replication Machinery Family AT4G29910 59.1 4.1e-177 618.2
Cme05g00896 . 1 277 Core DNA Replication Machinery Family AT1G26840 63.2 1.7e-91 332.8
Cme01g01521 . 4 800 Core DNA Replication Machinery Family AT1G79150 58.0 3.0e-245 845.1
Cme04g01735 . 1 939 Core DNA Replication Machinery Family AT1G44900 73.8 0.0e+00 1311.6
Cme08g00150 . 1 575 Core DNA Replication Machinery Family AT5G46280 80.7 3.0e-268 921.0
Cme01g01361 . 80 830 Core DNA Replication Machinery Family AT2G16440 77.5 0.0e+00 1146.7
Cme05g01856 . 1 742 Core DNA Replication Machinery Family AT2G07690 76.2 0.0e+00 1088.6
Cme08g00004 . 14 785 Core DNA Replication Machinery Family AT5G44635 69.1 0.0e+00 1094.7
Cme01g02199 . 4 722 Core DNA Replication Machinery Family AT4G02060 85.1 0.0e+00 1217.6
Cme11g01369 . 12 458 Core DNA Replication Machinery Family AT2G29680 53.3 1.9e-136 483.0
Cme11g01369 . 22 427 Core DNA Replication Machinery Family AT1G07270 52.8 1.7e-120 429.9
Cme01g01799 . 1 593 Core DNA Replication Machinery Family AT3G25100 76.2 2.5e-257 884.8
Cme04g02557 . 12 792 Core DNA Replication Machinery Family AT3G09660 73.0 0.0e+00 1098.2
Cme01g00219 . 10 477 Core DNA Replication Machinery Family AT2G14050 76.8 2.9e-211 731.9
Cme01g02620 . 1 200 Core DNA Replication Machinery Family AT1G80190 66.3 4.0e-74 274.6
Cme07g01243 . 1 145 Core DNA Replication Machinery Family AT3G12530 71.0 2.7e-59 224.9
Cme03g00250 . 118 312 Core DNA Replication Machinery Family AT1G19080 54.0 2.5e-46 182.2
Cme03g00250 . 118 312 Core DNA Replication Machinery Family AT3G55490 54.0 2.5e-46 182.2
Cme06g00165 . 1 188 Core DNA Replication Machinery Family AT5G49010 55.3 3.3e-46 181.8
Cme11g00335 . 9 1546 Core DNA Replication Machinery Family AT5G67100 60.7 0.0e+00 1761.5
Cme12g01926 . 3 622 Core DNA Replication Machinery Family AT1G67630 62.3 5.3e-218 754.2
Cme11g02327 . 8 412 Core DNA Replication Machinery Family AT1G67320 64.3 9.1e-165 577.0
Cme09g00110 . 1 118 Core DNA Replication Machinery Family AT5G41880 75.4 1.9e-52 203.8
Cme08g01142 . 1 1086 Core DNA Replication Machinery Family AT5G63960 80.6 0.0e+00 1794.6
Cme04g02239 . 1 495 Core DNA Replication Machinery Family AT2G42120 55.3 4.4e-150 528.1
Cme11g02327 . 8 412 Core DNA Replication Machinery Family AT1G67320 64.3 9.1e-165 577.0
Cme09g01463 . 34 158 Core DNA Replication Machinery Family AT1G09815 60.8 6.3e-38 153.7
Cme11g01900 . 1 2095 Core DNA Replication Machinery Family AT1G08260 71.2 0.0e+00 2984.5
Cme09g00647 . 7 1305 Core DNA Replication Machinery Family AT1G08260 60.8 0.0e+00 1701.8
Cme11g01900 . 25 2206 Core DNA Replication Machinery Family AT2G27120 67.5 0.0e+00 2938.3
Cme09g00647 . 29 1305 Core DNA Replication Machinery Family AT2G27120 59.2 0.0e+00 1620.1
Cme12g02044 . 7 487 Core DNA Replication Machinery Family AT5G22110 68.9 1.4e-192 669.5
Cme05g00231 . 1 926 Core DNA Replication Machinery Family AT5G22010 64.0 2.1e-308 1055.0
Cme06g02668 . 1 331 Core DNA Replication Machinery Family AT1G63160 91.0 1.6e-173 605.5
Cme08g01938 . 1 354 Core DNA Replication Machinery Family AT5G27740 85.3 1.0e-178 622.9
Cme07g00817 . 1 290 Core DNA Replication Machinery Family AT1G21690 80.4 2.7e-128 455.3
Cme03g00527 . 39 254 Core DNA Replication Machinery Family AT1G77470 78.3 6.1e-89 324.7
Cme06g02413 . 32 705 Core DNA Replication Machinery Family AT2G06510 50.7 1.3e-197 686.4
Cme02g01827 . 1 634 Core DNA Replication Machinery Family AT5G08020 66.3 2.8e-240 828.2
Cme06g02413 . 10 814 Core DNA Replication Machinery Family AT5G45400 52.8 7.2e-234 807.4
Cme02g01827 . 1 629 Core DNA Replication Machinery Family AT5G61000 64.3 9.1e-234 806.6
Cme06g02413 . 5 800 Core DNA Replication Machinery Family AT4G19130 53.9 9.9e-230 793.5
Cme04g02390 . 37 142 Core DNA Replication Machinery Family AT4G18590 65.1 1.6e-37 152.1
Cme02g00001 . 1 377 Core DNA Replication Machinery Family AT5G26680 85.0 7.7e-181 630.2
Cme07g01888 . 8 297 Core DNA Replication Machinery Family AT2G25100 68.3 3.7e-115 411.4
Cme11g01841 . 1 849 Core DNA Replication Machinery Family AT1G08130 62.9 1.0e-287 986.1
Cme11g01841 . 201 849 Core DNA Replication Machinery Family AT1G49250 64.2 9.5e-234 806.6
       

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
OG0008728 0 2 1 1 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 1 1 1 35