Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cco05g0519 ATGGAGCCAAACAGCATTCTACAAGAGAAAGTCAAGAAGGTTCGATCCGCGGTCGGGCCCGACTTGCCGGATTCCTTCATTCAACGGACGCTGTTGACAAGCGACGGTGACATAGACGAGGCTATTAAATACATTCTTCAAAATCCTGGGTTTTTGGCCAAGCCATTGTCTGTTGTACGGACGGTCACTAGCACCGGTGCTCGAGTTTCAACACAGTTCATGCAGGATGATTCTATGGAGTCCGAGGAGGTAGCGAAACCGACGGTACAAGTCAAGGAGGAATCGGGTTTCGGGTTTGAAGATAAAGGCATAGAGAACAGGGGAGCGAGCTCGGATCGTCCAGAGGGTTTGCCAAAGGCCATCAGAACGTGGGAAACGAGATTCGATGAGTTTCTTAAACAGACAAACACGAAAGTGATGAGCGATGAGAAGTATAGCAAGATCCCTGAGGGAAATCCGGCTGCGAAGATTCAAGCAAAGGAGGAAGCAGTTGAGACGAATGCACAACCTGGTCCTAACACAAATGTGAGAGTAAAAGAAGAACCAGATTTGGAGTTTAAGAACAGAGTATTTGCAAGAGAAGCAAGCTCTAGGACTGAATATTTCGCAAAGTCGGTTTCAAGTACACCAAGAACGAATTCGGTGGATTCAGATGGCATGCAGAAGAATGGGACCTTGTCTAATGATGGGAGGTGCAAGATTGACGATGGGGATTTCCCTATTGAGCCTGATTGGTTTTTGGTGGGAAGGACAGTGGTCACAGCCATGTCCACCACGAAAGGGGATAAATTAGCAGATAATGAACTAGTTAATTTTGCATTTCCTTCTTCAAATTCAAGATTCAATGCGCAATGGATTGTTCGCTTCTCAACTAAAAGAAGTGGAGAGATTGGTCGCTTACCAATGGAGTGGGCAAAATGTGTAGTTCCACTTGTCGACTCCCGGAAAGTTAAAATTCTTGGACGGTGTATAGCCGCACCAGGAAACCTTCACATAATGCAAGAAATCCTTCTATACGTTAGCTTTTATATCCATAGTTCGGTATTCTCGGACATTGATACAGTTACAAGGAAGTTGGAGGCTACACACATTGACTCTACAATTTATCCTCTTCTTACCCTTTTCGGATTACTGAAAATCACACCGTACCAGAAGGCTGAATTTACACCAGAAGAACTTGATTCAAGGAAGCGTCTGCTGAAGCTTGAAGATGATCCTGATGAAGCGGCATCAATGCTACCTATTGTGAAGCGGAGAAAGGGTTCCCAGCAATTTGCCGATCAAAACAAAGATGACCAAACTCTTAATGAATCATCACTGACTAAGCTTGTTGGTGCTTCAGATATGTATAATTTGGATGAAATGGAGCCTCCACGTACACTGACATGTGATCTTAGGCCTTATCAGAAGCAAGCTCTATTCTGGATGTCTGAGTTAGAGAAGGGGATCGATGTTGAGAAGGCTGCACAAACCCTTCATCCATGCTGGTCAGCCTATCGCATCTGTGATGAGAGAGCCTCCTCAATCTATGTAAACATTTTCTCCGGGGAATCAACTACAAAATTCCCAACTGCAACACAGATGGCAAGAGGAGGAATTCTTGCGGATGCAATGGGGCTTGGAAAGACCGTTATGACAATTGCTCTTATACTTGCGAGGATGGGCAAAGGATGCCCTAATGACCAAAAGCCAGCAGTGAATAAGAATGTTACCACACAGAAAAAAAGTACGAAATCCACAACTAAAGCTAGGGGTGGGACCCTTATTGTTTGTCCAATGGCTTTGCTGGGCCAATGGAAGGAGGAGCTTGAAATACATTCAGAGCCTGAAAGTATTTCCATATTTGTTCACTATGGTGGTGATAGAACCAACAATCCAGAGGTGCTGTCAGGATATGATGTTGTCTTGACAACGTATGGTGTCCTAACATCCGCCTATAAGAGTGATGGAGAGTTCAGTATTTACCACAGAGTTGATTGGTACAGAGTGGTGTTAGATGAAGCCCATACAATTAAATCATCAAAGACACAAACTGCCCAGGCTGCTTTTACACTGAACTCATATTGCCGGTGGTGTCTTACTGGAACCCCCCTCCAGAATAACTTGGAAGACCTTTTCAGTCTCTTATGCTTCTTGCGTGTGGAACCATGGTGCAATTGGGCATGGTGGAACAAGTTGATTCAAAGGCCTTATGAAAATGGTGATCCTAGAGGCTTGAGATTGATCAAGGCTATCCTGAGGCCACTTGTGTTGAGGAGAACTAAAGATACAAAGGATGCAGAAGGAAGGCCTATTCTTGTTCTCCCTCCTACTGATATTCAAACCGTCACATGTGGACAGTCTAAGGCTGAACGTGATTTTTATGATGCACTTTTTAAGAGATCAAAAGTCCAGTTTGATCAGTTTGTAGCACAAGGAAAGGTTCTCCACAACTATGCAAACATCCTCGAGCTCTTGCTTCGACTTAGGCAGTGTTGCAACCACCCATTTCTTGTAATGAGCCGAGGAGATTCACAACAATATGCCAACTTGAACAAGCTTGCAAGAAAGTTCCTTGAATCCAACAGTAATTCTACAACAATGGAGCAGGCTGCACCGACCAGAGCATATGTTGAAGAGGTAGTTGAGTGCATTCGGCGAGGTGAAAACACCGAGTGCCCAATATGTATGGAGTTTGCCGACGATGCAGTGCTCACCCCATGTGCTCACAGGATGTGTAGGGAGTGTCTCCTCTCAAGCTGGAGGACCCCGACATGTGGGCTCTGCCCAATTTGTAGGCAATTGGTGAAGAAAACTGACCTCATAACATGTCCATCAGAAAACCCTTTTCGTGTGGATGTTGAGAAGAACTGGAAGGAGTCTTCAAAAGTATCAAAACTGCTGGAATGCTTGGAACAAATTAATCAGTCGGGTTCTGGTGAAAAGAGCATTGTTTTTAGCCAGTGGACTACATTTTTTGATCTCTTAGAGATTCCCTTGAAGAGGAAACTAATTGGATTCTTCAGATTCGATGGGAAACTGACGCAGAAGCATAGGGAAAGAGTTCTAAAAGAGTTCAGTGAAAGCAAGGAGAAAAAGGTGATGCTAATTTCTCTAAAAGCTGGTGGGGTTGGATTGAATCTAACCGCAGCTTCAAATGTCTTCATAATGGATCCATGGTGGAATCCTGCGGTTGAGGAACAAGCAATCATGAGGATCCATCGTATTGGTCAGAAGAGGACAGTCCGTGTGAGAAGATTCATTGTCAAGGACACCGTGGAGGAACGCATGCAACAAGTTCAGGCCAGAAAGCAGCGGATGATCGCGGGTGCCCTCACTGACGAGGAAGTTCGAACGGCCAGGATTGAAGAGCTCAAGATGCTCTTTAGATAG 3372 44.78 MEPNSILQEKVKKVRSAVGPDLPDSFIQRTLLTSDGDIDEAIKYILQNPGFLAKPLSVVRTVTSTGARVSTQFMQDDSMESEEVAKPTVQVKEESGFGFEDKGIENRGASSDRPEGLPKAIRTWETRFDEFLKQTNTKVMSDEKYSKIPEGNPAAKIQAKEEAVETNAQPGPNTNVRVKEEPDLEFKNRVFAREASSRTEYFAKSVSSTPRTNSVDSDGMQKNGTLSNDGRCKIDDGDFPIEPDWFLVGRTVVTAMSTTKGDKLADNELVNFAFPSSNSRFNAQWIVRFSTKRSGEIGRLPMEWAKCVVPLVDSRKVKILGRCIAAPGNLHIMQEILLYVSFYIHSSVFSDIDTVTRKLEATHIDSTIYPLLTLFGLLKITPYQKAEFTPEELDSRKRLLKLEDDPDEAASMLPIVKRRKGSQQFADQNKDDQTLNESSLTKLVGASDMYNLDEMEPPRTLTCDLRPYQKQALFWMSELEKGIDVEKAAQTLHPCWSAYRICDERASSIYVNIFSGESTTKFPTATQMARGGILADAMGLGKTVMTIALILARMGKGCPNDQKPAVNKNVTTQKKSTKSTTKARGGTLIVCPMALLGQWKEELEIHSEPESISIFVHYGGDRTNNPEVLSGYDVVLTTYGVLTSAYKSDGEFSIYHRVDWYRVVLDEAHTIKSSKTQTAQAAFTLNSYCRWCLTGTPLQNNLEDLFSLLCFLRVEPWCNWAWWNKLIQRPYENGDPRGLRLIKAILRPLVLRRTKDTKDAEGRPILVLPPTDIQTVTCGQSKAERDFYDALFKRSKVQFDQFVAQGKVLHNYANILELLLRLRQCCNHPFLVMSRGDSQQYANLNKLARKFLESNSNSTTMEQAAPTRAYVEEVVECIRRGENTECPICMEFADDAVLTPCAHRMCRECLLSSWRTPTCGLCPICRQLVKKTDLITCPSENPFRVDVEKNWKESSKVSKLLECLEQINQSGSGEKSIVFSQWTTFFDLLEIPLKRKLIGFFRFDGKLTQKHRERVLKEFSESKEKKVMLISLKAGGVGLNLTAASNVFIMDPWWNPAVEEQAIMRIHRIGQKRTVRVRRFIVKDTVEERMQQVQARKQRMIAGALTDEEVRTARIEELKMLFR 1123
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 4148166 4153935 + CcPI632755_05g005190.1 Cco05g0519 178147

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cco05g0519 1123 Pfam CUE domain 20 48 IPR003892 GO:0043130(InterPro)
Cco05g0519 1123 FunFam DNA repair protein RAD5B 520 754 - -
Cco05g0519 1123 CDD CUE 20 46 - -
Cco05g0519 1123 MobiDBLite consensus disorder prediction 202 231 - -
Cco05g0519 1123 CDD DEXDc_SHPRH-like 465 753 - -
Cco05g0519 1123 Pfam Helicase conserved C-terminal domain 958 1070 IPR001650 -
Cco05g0519 1123 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 451 753 IPR027417 -
Cco05g0519 1123 SMART ring_2 886 925 IPR001841 -
Cco05g0519 1123 SMART HIRAN_2 248 344 IPR014905 GO:0003676(InterPro)|GO:0008270(InterPro)|GO:0016818(InterPro)
Cco05g0519 1123 ProSitePatterns Zinc finger RING-type signature. 901 910 IPR017907 -
Cco05g0519 1123 CDD RING-HC 885 925 - -
Cco05g0519 1123 Gene3D - 519 754 IPR038718 -
Cco05g0519 1123 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 523 715 IPR014001 -
Cco05g0519 1123 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 766 1113 IPR027417 -
Cco05g0519 1123 ProSiteProfiles Superfamilies 1 and 2 helicase C-terminal domain profile. 956 1123 IPR001650 -
Cco05g0519 1123 SMART helicmild6 987 1070 IPR001650 -
Cco05g0519 1123 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 879 935 IPR013083 -
Cco05g0519 1123 SUPERFAMILY RING/U-box 874 931 - -
Cco05g0519 1123 PANTHER TRANSCRIPTION TERMINATION FACTOR 2-RELATED 175 1122 IPR050628 GO:0005634(PANTHER)|GO:0006281(PANTHER)|GO:0008094(PANTHER)
Cco05g0519 1123 MobiDBLite consensus disorder prediction 202 228 - -
Cco05g0519 1123 Pfam Zinc finger, C3HC4 type (RING finger) 883 931 - -
Cco05g0519 1123 MobiDBLite consensus disorder prediction 419 438 - -
Cco05g0519 1123 Pfam SNF2-related domain 468 830 IPR000330 GO:0005524(InterPro)|GO:0140658(InterPro)
Cco05g0519 1123 Pfam HIRAN domain 249 340 IPR014905 GO:0003676(InterPro)|GO:0008270(InterPro)|GO:0016818(InterPro)
Cco05g0519 1123 Gene3D - 769 1123 IPR027417 -
Cco05g0519 1123 ProSiteProfiles CUE domain profile. 6 50 IPR003892 GO:0043130(InterPro)
Cco05g0519 1123 ProSiteProfiles Zinc finger RING-type profile. 886 926 IPR001841 -
Cco05g0519 1123 CDD SF2_C_SNF 954 1081 IPR049730 -
Cco05g0519 1123 SMART ultradead3 461 732 IPR014001 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cco05g0519 K15505 - - csv:101214691 1965.66
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cco01g1414 Cco-Chr1:25710558 Cco05g0519 Cco-Chr5:4148166 4.90E-296 dispersed
Cco04g2064 Cco-Chr4:34638482 Cco05g0519 Cco-Chr5:4148166 4.40E-86 dispersed
Cco05g0519 Cco-Chr5:4148166 Cco11g0576 Cco-Chr11:6163864 1.40E-38 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
Vvi5g647 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone7ag0310 Cone4ag0312 Lsi05g01699 . . Cme06g00516 . . . . . . . . . . . . . . . . . . . . . . . . Cla05g00464 Cam05g0505 Cec05g0518 Cco05g0519 Clacu05g0506 Cmu05g0482 Cre05g0546 . Csa03g01237 Chy06g00490 .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cco02g0978 . 79 873 RAD5/RAD16-like Gene Family AT1G05120 59.3 3.9e-270 927.9
Cco04g2064 . 283 1226 RAD5/RAD16-like Gene Family AT1G11100 52.6 1.3e-243 840.1
Cco01g0839 . 230 1006 RAD5/RAD16-like Gene Family AT1G11100 51.3 2.7e-204 709.5
Cco01g0839 . 11 906 RAD5/RAD16-like Gene Family AT1G50410 53.6 1.5e-245 846.3
Cco04g2064 . 396 1127 RAD5/RAD16-like Gene Family AT1G50410 50.9 1.4e-190 663.7
Cco04g2064 . 387 1226 RAD5/RAD16-like Gene Family AT1G61140 61.2 4.5e-271 931.4
Cco01g0839 . 195 1008 RAD5/RAD16-like Gene Family AT1G61140 54.0 2.9e-230 795.8
Cco04g2064 . 443 1125 RAD5/RAD16-like Gene Family AT3G20010 50.1 1.1e-180 630.9
Cco01g1414 . 1 1039 RAD5/RAD16-like Gene Family AT5G22750 70.5 0.0e+00 1455.7
Cco05g0519 . 244 1122 RAD5/RAD16-like Gene Family AT5G22750 55.8 3.8e-293 1004.6
Cco05g0519 . 233 1123 RAD5/RAD16-like Gene Family AT5G43530 72.3 0.0e+00 1320.1
Cco01g1414 . 128 1038 RAD5/RAD16-like Gene Family AT5G43530 54.9 1.1e-286 983.4
       

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
OG0014742 0 0 0 0 0 1 0 1 1 1 1 1 0 1 1 0 1 0 0 1 1 1 1 0 1 1 1 1 1 1 19
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
59224 PF00176 SNF2_N 5.70E-81 CL0023 Cco TR