Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa03g01237 ATGGAGGTAAACGCCATTCTAGAAGAGAAACTCAAAAAGATTCGATCTGTGGTCGGCCTTGACTTTCCGGATTCCTTTATTCATCGGACGTTGTCGAGAAACGGCGGTGACCCTGATGAGGCTATTAAGTACATTCTCGAAAACCCTGGGTTTTTGGCCAGGCCACTGTCTGTTGTACGGACTGTCACTAGCACCGGTGCTCGAGTTTCGACACAGTTCATGCAGAAGGATTCTATGGAGTCGGAGGAGGTAGCGAAACCGACGGTACAAGTGAAGGAGGAACCGGGTTTAGGGCTCGAAGATAAAGGCATTGATAATTGGGGAGTAAGCTCGGATCGTTCAAAGGTCACTGGAACGTCGAAAATGACACTTGACGAGTTTCTTAAACCGAATGCGATGAGCGATGAGGAGTATAGCAAGATCCTTAAGGAAATGGCGGCAGCGAAACCCAGTGCCAAGAATAATGTAAAGGAGGAACCAGTTGAGGCGATGGCGCAATCTGGTGCTGGTACAAATGCGAGGGTAAAAGAAGAACCAGATTTGGAGGTTAAGAACAGAGCATTTGCTAAAAAAGCAAGGTCGGAGACTGAAAATTTTGCAATGTCGGTTTCAAGCAATACAAGTGGCATGCAAAGGAATGGGACCTTTTCTAATGATGGGAGGTGCAAGATTGAAGATGGGGATTTCCCTATTGAGCCCGATTGGTTTTTGGTGGGAAGGACAGTGGTCACAGCCATGTCCACCACGAAAGGGAATAAATTAGCAGATAATGAAATTGTTAATTTTGCGTTTCCTTCTTCAAGTTCTAGATTCAATGCGCAATGGATTGTTCGCTTCTCAACTAAAAGAAGTGGAGAGATTGGTCGCCTACCAATGGAGTGGGCAAAATGTGTAGTTCCACTTGTCAACTCCCAGAAAGTTAAAATTCTTGGACGATGTATAGCTGCACCAGGAAACCTTCACATAATGCAAGAGATCCTTCTATATGTTAGCTTTTATATTCATAATTCAGTATTCTCAGACATTGATACAGTTACATGGAAGCTGGAGGCTACGCACATTGACTCTACAATTTATCCTCTTCTTACCCTTTTCAAATTACTGAAAATCACACCGTACCAGAAGGCTGAATTTACACCAGAAGAACTTGATTCAAGGAAGCGTCTGCTGAAGCTTGAAGATGATCCAGATGAATCAACATCTATGCTACCTCTTGTGAAGCGAAGAAAGGGTTCCCAGCAATTTGCAGATCAAAACAAAGATGACCAAACTCTTAATGAATCATCACTGACTAAGCTTGTTGGTGCAGTAGATATGTATAATCTGGATGAAATGGAGCCTCCACCTACACTAACCTGTGATCTTAGGCCTTATCAAAAGCAAGCTCTATTCTGGATGTCTGAGTTGGAGAAGGGGATCGATGTTGAGAAGGCCGCACAAACCCTTCATCCATGCTGGTCAGCCTACCGTATCTGTGATGAGAGAGCAACCTCAATCTATGTAAACATTTTCTCTGGGGAATCAACTACAAAATTCCCAACTGCAACACAGATGGCAAGAGGAGGAATTCTCGCGGATGCAATGGGGCTTGGAAAGACGGTTATGACAATTGCTCTTATACTTGCGAGGATGGGCAAAGGATGCCCTGATAACCAAAAGTCCACAGTGAATAAGAAAGTAACCACAGAGAAAAAAAGTCAGAAATCCACGACTAAAGCAAGGGGTGGCACCCTTATTGTTTGTCCAATGGCTTTGCTGGGTCAATGGAAGGAGGAACTTGAAATACATTCAGAGCCTGAAAGTATTTCCATATTTGTTCATTATGGTGGTGATAGAACTAACAACCCGGAGGTGCTATTAGGATATGATGTTGTATTGACAACGTATGGTGTCCTAACATCGGCCTATAAGAGTGATGGAGAGTTTAGTATTTACCACAGAGTTGATTGGTACAGAGTTGTGTTAGATGAAGCCCATACAATTAAATCATCAAAGACACAAACTGCACAGGCTGCCTTTACACTGAACTCATATTGTCGCTGGTGTCTTACTGGAACCCCCCTCCAGAATAACCTGGAAGACCTTTTCAGCCTGTTATGCTTCTTGCGAGTGGAACCGTGGTGCAATTGGGCATGGTGGAACAAGTTGATTCAAAGGCCTTATGAAAATGGTGATCCTAGAGGCTTGAGATTGATCAAGGCTATCCTGAGGCCACTCATGTTGAGGAGAACTAAAGATACAAACGATGCAAACGGAAGGCCTATTCTTGTTCTTCCTCCTACTGATATTCAAACCGTCATGTGTGAACAGTCTGAGGCTGAACATGATTTTTATGATGCACTTTTTAAGAAATCAAAAGTCCAGTTTGACCAGTTTGTAGCACAAGGAAAGGTTCTCCACAACTATGCAAACATCCTCGAGCTCTTGCTTCGACTTAGGCAGTGTTGCAACCACCCATTTCTTGTAATGAGCCGAGGAGATTCACAACAATATGCCAACTTAAACAAGCTTGCAAGAAAGTTCCTTGAATCCAACACTAATTCTACAACAATGGAGCAGGTTGCACCAACTCGAGCATATGTCGAAGATGTTGTCGAGTGCATTCGGCGAGGGGAAAACACTGAGTGTCCAATATGTTTGGAATTTGCTGACGATGCAGTGCTCACCCCATGTGCTCACAGGATGTGTAGGGAATGTCTCCTCTCGAGCTGGAGGACCCCCACATGTGGGTTCTGCCCAATTTGTAGGCAAATGCTGAGGAAAACTGAGCTCATAACATGTCCATCAGAAAGCCCTTTCCGTGTGGATGTTGAGAAGAACTGGAAGGAGTCTTCAAAAGTATCAAAACTGCTGGAATGCTTGGAGAGGATTAATCTGTTGGGTTCTGGTGAAAAGAGCATTGTTTTTAGCCAGTGGACTACGTTTTTTGATCTCTTAGAGATTCCCTTGAAGAGGAAAAGAATTGGATTCTTCAGATTTGATGGGAAGCTGTCGCAGAAACATAGGGAAAGAGTTCTAAAGGAGTTCAGTGAAAGCAAGGAGATAAAGGTGATGCTGATTTCTCTAAAAGCTGGTGGGGTTGGATTGAATCTAACCGCAGCATCAAATGTCTTCATAATGGATCCATGGTGGAATCCCGCGGTTGAGGAACAAGCAATCATGAGGATTCATCGTATTGGTCAGAAGAGGAGAGTCCGAGTCAGAAGATTCATTGTCAAGGACACAGTGGAGGAACGCATGCAACAAGTTCAAGCCAGAAAGCAACGGATGATCGCCGGTGCACTCACTGACGAGGAAGTTAGAACGGCCAGAATTGAAGAGCTCAAGATGCTATTTAGATGA 3342 43.96 MEVNAILEEKLKKIRSVVGLDFPDSFIHRTLSRNGGDPDEAIKYILENPGFLARPLSVVRTVTSTGARVSTQFMQKDSMESEEVAKPTVQVKEEPGLGLEDKGIDNWGVSSDRSKVTGTSKMTLDEFLKPNAMSDEEYSKILKEMAAAKPSAKNNVKEEPVEAMAQSGAGTNARVKEEPDLEVKNRAFAKKARSETENFAMSVSSNTSGMQRNGTFSNDGRCKIEDGDFPIEPDWFLVGRTVVTAMSTTKGNKLADNEIVNFAFPSSSSRFNAQWIVRFSTKRSGEIGRLPMEWAKCVVPLVNSQKVKILGRCIAAPGNLHIMQEILLYVSFYIHNSVFSDIDTVTWKLEATHIDSTIYPLLTLFKLLKITPYQKAEFTPEELDSRKRLLKLEDDPDESTSMLPLVKRRKGSQQFADQNKDDQTLNESSLTKLVGAVDMYNLDEMEPPPTLTCDLRPYQKQALFWMSELEKGIDVEKAAQTLHPCWSAYRICDERATSIYVNIFSGESTTKFPTATQMARGGILADAMGLGKTVMTIALILARMGKGCPDNQKSTVNKKVTTEKKSQKSTTKARGGTLIVCPMALLGQWKEELEIHSEPESISIFVHYGGDRTNNPEVLLGYDVVLTTYGVLTSAYKSDGEFSIYHRVDWYRVVLDEAHTIKSSKTQTAQAAFTLNSYCRWCLTGTPLQNNLEDLFSLLCFLRVEPWCNWAWWNKLIQRPYENGDPRGLRLIKAILRPLMLRRTKDTNDANGRPILVLPPTDIQTVMCEQSEAEHDFYDALFKKSKVQFDQFVAQGKVLHNYANILELLLRLRQCCNHPFLVMSRGDSQQYANLNKLARKFLESNTNSTTMEQVAPTRAYVEDVVECIRRGENTECPICLEFADDAVLTPCAHRMCRECLLSSWRTPTCGFCPICRQMLRKTELITCPSESPFRVDVEKNWKESSKVSKLLECLERINLLGSGEKSIVFSQWTTFFDLLEIPLKRKRIGFFRFDGKLSQKHRERVLKEFSESKEIKVMLISLKAGGVGLNLTAASNVFIMDPWWNPAVEEQAIMRIHRIGQKRRVRVRRFIVKDTVEERMQQVQARKQRMIAGALTDEEVRTARIEELKMLFR* 1114
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 9475809 9481494 + CsaV3_3G012370.1 Csa03g01237 522142

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa03g01237 1113 ProSiteProfiles Ubiquitin-associated domain (UBA) profile. 6 48 IPR015940 -
Csa03g01237 1113 SMART helicmild6 977 1060 IPR001650 -
Csa03g01237 1113 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 513 705 IPR014001 -
Csa03g01237 1113 CDD SF2_C_SNF 944 1062 - -
Csa03g01237 1113 CDD DEXDc_SHPRH-like 455 743 - -
Csa03g01237 1113 MobiDBLite consensus disorder prediction 552 573 - -
Csa03g01237 1113 CDD RING-HC 876 915 - -
Csa03g01237 1113 MobiDBLite consensus disorder prediction 151 182 - -
Csa03g01237 1113 SMART ultradead3 451 722 IPR014001 -
Csa03g01237 1113 SMART HIRAN_2 238 334 IPR014905 GO:0003676|GO:0008270|GO:0016818
Csa03g01237 1113 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 756 1103 IPR027417 -
Csa03g01237 1113 ProSitePatterns Zinc finger RING-type signature. 891 900 IPR017907 -
Csa03g01237 1113 Pfam HIRAN domain 239 330 IPR014905 GO:0003676|GO:0008270|GO:0016818
Csa03g01237 1113 Gene3D - 509 744 IPR038718 -
Csa03g01237 1113 Gene3D - 759 1113 IPR027417 -
Csa03g01237 1113 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 869 925 IPR013083 -
Csa03g01237 1113 PANTHER DNA REPAIR PROTEIN RAD5B 374 1113 - -
Csa03g01237 1113 Pfam Helicase conserved C-terminal domain 949 1060 IPR001650 -
Csa03g01237 1113 SMART ring_2 876 915 IPR001841 -
Csa03g01237 1113 Pfam SNF2-related domain 458 821 IPR000330 GO:0005524|GO:0140658
Csa03g01237 1113 Pfam Zinc finger, C3HC4 type (RING finger) 876 915 IPR018957 GO:0046872
Csa03g01237 1113 SUPERFAMILY RING/U-box 862 921 - -
Csa03g01237 1113 ProSiteProfiles Superfamilies 1 and 2 helicase C-terminal domain profile. 946 1113 IPR001650 -
Csa03g01237 1113 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 442 743 IPR027417 -
Csa03g01237 1113 PANTHER TRANSCRIPTION TERMINATION FACTOR 2-RELATED 374 1113 - -
Csa03g01237 1113 ProSiteProfiles Zinc finger RING-type profile. 876 916 IPR001841 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa03g01237 K15505 RAD5; DNA repair protein RAD5 [EC:5.6.2.-] - csv:101214691 2212.96
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g01438 Csa-Chr1:9988096 Csa03g01237 Csa-Chr3:9475809 0 dispersed
Csa03g01237 Csa-Chr3:9475809 Csa05g01466 Csa-Chr5:16544398 1.84E-105 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
Csa02g02667 . 80 874 RAD5/RAD16-like Gene Family AT1G05120 59.1 4.4e-268 921.0
Csa06g03606 . 343 1287 RAD5/RAD16-like Gene Family AT1G11100 52.5 5.2e-242 834.7
Csa05g01466 . 228 1007 RAD5/RAD16-like Gene Family AT1G11100 50.7 8.9e-202 701.0
Csa05g01466 . 11 906 RAD5/RAD16-like Gene Family AT1G50410 55.2 4.7e-241 831.2
Csa06g03606 . 467 1186 RAD5/RAD16-like Gene Family AT1G50410 51.2 6.4e-190 661.4
Csa06g03606 . 447 1285 RAD5/RAD16-like Gene Family AT1G61140 60.6 1.4e-269 926.4
Csa05g01466 . 224 1005 RAD5/RAD16-like Gene Family AT1G61140 57.1 3.7e-227 785.4
Csa01g01438 . 1 1041 RAD5/RAD16-like Gene Family AT5G22750 70.4 0.0e+00 1445.6
Csa03g01237 . 234 1112 RAD5/RAD16-like Gene Family AT5G22750 55.7 2.5e-294 1008.4
Csa03g01237 . 129 1114 RAD5/RAD16-like Gene Family AT5G43530 67.4 0.0e+00 1324.7
Csa01g01438 . 128 1039 RAD5/RAD16-like Gene Family AT5G43530 54.7 6.5e-284 974.2
       

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
31173 PF00176 SNF2_N 6.20E-82 CL0023 Csa TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa03g01237 Csa_Chr03 FPKM 3.557945 7.941186 10.419614 9.563679 2.529989 4.213457 3.344507 10.176232 10.189487 10.278388