Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa03g00208 ATGGATTCGCAACAGAACAATTTGTTTGAAACCGCATCTCAACCCGACACCGCTAACGATGCTTACACATTTCTTGAGTTCAACACACAGGGGGAAGACTTCGATTACCCTGAATTTCGCGACCCTATTAGGCCCCCTGTAGCCTGGCCCACTCCTTCTGATTCCTTAGCGGATCATACGGACCGTGGTGGCGGGTCCGATCACCAGTCTGATGCTTCTCCGGTTTCCGCTGCACCTGGAAGTGCCACCAAAGGACGGACTGGAGGAGGTTCGGGGAATACTGGCGGTAATAATCAAATGGTTGATGCATTGGCAGCCGGGATGAGTGGGTTGACGTTTAAGGATACTGGGGATGATGATAATTATGAGTTTGGAAAAGGGAATTTCACGGAGCATGCTTGTAGGTATTGTGGGGTGTCGAACCCGGCTTGTGTTGTGAGGTGTAATGTACCCTCATGTCGTAAGTGGTTCTGCAATTCGCGAGGGAACACCTCTGGGTCGCATATTGTGAATCATCTGGTCCGGGCAAAGCATAAGGAGGTTTGTCTTCACAAGGACAGTCCTCTGGGAGAAACAATTCTGGAGTGCTACAATTGTGGTTGCCGAAATGTATTCCTCCTTGGATTTATTTCTGCAAAGACAGAAAGTGTGGTTGTTCTACTCTGTAGGGAGCCTTGCTTAAGTGTAAATGCTCTCAAGGATATGAATTGGGACTTGAGTCAGTGGTGCCCTCTCATTGATGATAGGTGCTTCTTGCAGTGGCTGGTTAAGATTCCTTCTGAGCAAGAGCAGTTGAGGGCACGGCAAATTAGTGCACAACAAATAAATAAAATTGAGGAACTTTGGAAAACAAACCCAGATGCATCCCTTGAAGATCTTGAAAAACCTGGTGTGGATGATGAACCACAGCCTGTAGCATTGAAATATGAAGATGCTTATCAGTATCAAAACGTATTTGCACCTCTTATCAAGCTTGAAGCTGACTACGATAAAATGATGAAAGAATCTCAGAGCAAAGATAATGTCACTGTACGTTGGGACATTGGCCTTAACAAGAAGAGGATAGCTTATTTTGTATTTCCAAAGGAGGACAATGAATTGCGTCTTGTACCTGGAGATGAGTTGAGGTTACGTTATTCTGGTGATGCAGCTCATCCAGCTTGGCATTCTGTTGGTCATGTGATCAAGCTAACTGCACAGGAAGAGGTTGCACTTGAGCTTCGTGCAAGCCAGGGAGTCCCAGTTGATGTAGTCCATGGTTTTAGTGTTGATTTTGTGTGGAAGAGTACAAGCTTCGACCGAATGCAGGGAGCTATGAAGACATTTGCTGTTGATGAGACCAGTGTTAGTGGTTATATCTACCATCACTTATTAGGACATGAAGTGGAGGTCCAGATGGTCCGCAATACACTTCCTCGTCGTTTTGGTGCTCCTGGTCTCCCAGAGCTCAATGCATCTCAAGTATTTGCTGTCAAAAGTGTTCTTCAGAAGCCAATAAGCTTGATTCAGGGACCTCCGGGCACTGGAAAAACTGTAACTTCTGCTGCCATTGTGTATCATATGGCCAAACAAGGCCAAGGGCAGGTACTGGTCTGTGCCCCTAGTAATGTGGCTGTGGATCAGCTGGCAGAGAAGATAAGTGCAACTGGATTGAAGGTTGTTAGGCTATGTGCAAAATCAAGGGAAGCTGTAAGTTCTCCTGTGGAACACTTAACCCTTCATTATCAGGTTCGACATCTTGACACATCGGAAAGAAGTGAACTTCATAAGCTGCAACAATTGAAAGATGAGCAAGGGGAGTTGTCCAGCAGTGATGAGAAAAAATATAAGGCCCTTAAGAGAGCAACAGAGAGGGAAATTTCACAGAGTGCAGATGTTATTTGCTGCACATGTGTTGGTGCCGGAGACCCACGCTTGTCAAATTTTAGATTTCGTCAGGTTCTTATTGATGAGTCTACTCAGGCCACGGAACCTGAATGTCTCATTCCTCTTGTTCTTGGAGCAAAGCAGGCTGTTCTTGTTGGTGACCATTGCCAACTGGGACCTGTCATTATGTGTAAAAAAGCGGCACGTGCAGGGCTGGCTCAATCCCTCTTTGAGCGTCTTGTTCTTCTTGGTGTGAAGCCAATTAGATTGCAGGTTCAATATCGTATGCACCCATCGCTTTCTGAATTTCCTTCTAACAGCTTCTATGAGGGCACACTACAAAATGGAGTTACCATCAACGAAAGGCAATCAACAGGCATTGACTTCCCATGGCCTGTTCCCAACCGTCCAATGTTCTTCTATGTTCAGATGGGACAAGAGGAGATAAGTGCCAGTGGAACTTCCTACCTAAATAGGACTGAGGCAGCAAATGTAGAAAAAATTGTGACCACTTTTTTAAGGAGTGGCGTAGTCCCTAGTCAGATTGGAGTTATCACACCGTATGAGGGGCAAAGAGCTTACATCGTTAACTATATGTCAAGAAATGGTGCTCTCAGACAGCAACTTTACAAAGAAATTGAGGTTGCAAGCGTGGATTCATTTCAAGGAAGGGAAAAAGATTATATCATATTGTCATGTGTGAGGAGCAATGAACATCAGGGCATTGGATTTCTTAATGATCCTCGCAGGCTCAATGTGGCTTTAACACGAGCTCGATATGGTATCGTCATTCTAGGAAACCCAAAGGTTTTGAGCAAACAACCACTGTGGAATAGCTTATTGACGCATTACAAGGAACACGAGTGCTTGGTTGAGGGCCCTCTGAATAACTTGAAACAAAGCATGATTCAGTTTCAGAAGCCTAAAAAGATATACAATGATCGACGTCTTTTCTTTGCTGGTGGGCCTGGAGTCGTGCCAAATGATAATTTTGGACCTGTTGCTCCATCCGGCCCTAATGCTGATAGAAGAAGTAGCCGTGGTAGAGGTTCGTACTTTCCTCCTCACCTGCCGAATGGTGCCCAAAAGCCTGGTGTGCACGCATCTGGTTATCCCATGCCTCGAGTTCCCCTCCCCTCATTTCACGGCGGTCCCCCACAGCCATACGCAATTCCAACTCGTGGAGCTGTACATGGACCAGTTGGTGCTGTTCCTCATGTTCCTCAACCAGGAAGTAGGGGTTTCGGGGCAGGGCGGGGAAATGCAGGTGCTCCTATTGGGAGTCAGCTTCCAAATCAGCAAGGCTCTCAACAAAATATTGGAAATCTCGGTTCCACTTTTAACTTTCCTGGTTTGGAGAGTCCCAATAGCCAACCATCAGTGGGTGGTCCATTGTCCCAACTCGGGTTTGTTAACAACATGCCTGTTCAGCCACCTACTCAAACATTTCGCGATGGGTACTCCATGGGAGGAATTTCCCAGGACTTCCTGGGCGATGACTTTAAAAGCCAGGGATCACATGTTCCTTATAATGTCACTGATTTCTCCACTCAGGCATCTCAAACTGGATATCCCATTGATTATGTTGGTCAAGGAGGGCAGGGTGGCTTTCCAGGGAGCTTCCTGAACCAGAATTCTCAATCTGGATATTCCCGTTTTGGAACAGGAAATGATTTCATGTCACAGGATTACATGAACCATGGTTCACAGGGTTTATTTACTCAAGTTGGTTTCAGCGATCCCTCACTGGATGAAGCATCCCAAAGTCACTACAATGTGACCAATGCAAACCCACTACAGTCTCAGCAGGGCATGATGAATTCTCTCTACTCCCAGCCCTTTGCACATTACAATACACAGCCTTCAACCCTGCAGGCCCCACCACAGCAGCAGCCTCAGCAGGGACAGAGCTCCCAAAATCAGAAAATTCACTTTAGTGGTTGA 3810 46.19 MDSQQNNLFETASQPDTANDAYTFLEFNTQGEDFDYPEFRDPIRPPVAWPTPSDSLADHTDRGGGSDHQSDASPVSAAPGSATKGRTGGGSGNTGGNNQMVDALAAGMSGLTFKDTGDDDNYEFGKGNFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLSVNALKDMNWDLSQWCPLIDDRCFLQWLVKIPSEQEQLRARQISAQQINKIEELWKTNPDASLEDLEKPGVDDEPQPVALKYEDAYQYQNVFAPLIKLEADYDKMMKESQSKDNVTVRWDIGLNKKRIAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWHSVGHVIKLTAQEEVALELRASQGVPVDVVHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQKPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSERSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLSNFRFRQVLIDESTQATEPECLIPLVLGAKQAVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGVKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSTGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNSLLTHYKEHECLVEGPLNNLKQSMIQFQKPKKIYNDRRLFFAGGPGVVPNDNFGPVAPSGPNADRRSSRGRGSYFPPHLPNGAQKPGVHASGYPMPRVPLPSFHGGPPQPYAIPTRGAVHGPVGAVPHVPQPGSRGFGAGRGNAGAPIGSQLPNQQGSQQNIGNLGSTFNFPGLESPNSQPSVGGPLSQLGFVNNMPVQPPTQTFRDGYSMGGISQDFLGDDFKSQGSHVPYNVTDFSTQASQTGYPIDYVGQGGQGGFPGSFLNQNSQSGYSRFGTGNDFMSQDYMNHGSQGLFTQVGFSDPSLDEASQSHYNVTNANPLQSQQGMMNSLYSQPFAHYNTQPSTLQAPPQQQPQQGQSSQNQKIHFSG* 1270
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 1635213 1647259 + CsaV3_3G002080.1 Csa03g00208 521113

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa03g00208 1269 Pfam RNA helicase UPF1, 1B domain 337 426 IPR040812 -
Csa03g00208 1269 MobiDBLite consensus disorder prediction 1034 1085 - -
Csa03g00208 1269 Gene3D - 568 620 - -
Csa03g00208 1269 PANTHER REGULATOR OF NONSENSE TRANSCRIPTS 1-LIKE PROTEIN 108 1045 - -
Csa03g00208 1269 CDD ZBD_UPF1-like 133 255 IPR018999 GO:0000184|GO:0003723|GO:0003724|GO:0005524|GO:0005737|GO:0008270
Csa03g00208 1269 CDD 1B_UPF1-like 338 425 IPR040812 -
Csa03g00208 1269 Gene3D - 446 716 IPR027417 -
Csa03g00208 1269 Gene3D - 717 928 IPR027417 -
Csa03g00208 1269 Pfam AAA domain 583 685 IPR041677 GO:0004386
Csa03g00208 1269 Gene3D - 338 426 - -
Csa03g00208 1269 CDD DEXXQc_UPF1 482 717 - -
Csa03g00208 1269 PANTHER DNA2/NAM7 HELICASE FAMILY 108 1045 IPR045055 -
Csa03g00208 1269 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 479 912 IPR027417 -
Csa03g00208 1269 Pfam RNA helicase (UPF2 interacting domain) 132 285 IPR018999 GO:0000184|GO:0003723|GO:0003724|GO:0005524|GO:0005737|GO:0008270
Csa03g00208 1269 MobiDBLite consensus disorder prediction 1048 1085 - -
Csa03g00208 1269 CDD SF1_C_Upf1 718 907 IPR041679 -
Csa03g00208 1269 Pfam AAA domain 695 890 IPR041679 -
Csa03g00208 1269 Pfam Type III restriction enzyme, res subunit 486 550 IPR006935 GO:0003677|GO:0005524|GO:0016787
Csa03g00208 1269 MobiDBLite consensus disorder prediction 1 100 - -
Csa03g00208 1269 MobiDBLite consensus disorder prediction 951 994 - -
Csa03g00208 1269 MobiDBLite consensus disorder prediction 1 26 - -
Csa03g00208 1269 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 491 623 IPR014001 -
Csa03g00208 1269 MobiDBLite consensus disorder prediction 1237 1269 - -
Csa03g00208 1269 MobiDBLite consensus disorder prediction 86 100 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa03g00208 K14326 UPF1, RENT1; regulator of nonsense transcripts 1 [EC:3.6.4.13 5.6.2.3] - csv:101214107 2514.57
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g00208 Csa-Chr3:1635213 Csa05g00981 Csa-Chr5:8991242 1.02E-06 dispersed
Csa03g03618 Csa-Chr3:32238456 Csa03g00208 Csa-Chr3:1635213 6.94E-59 transposed
Csa04g01843 Csa-Chr4:18087368 Csa03g00208 Csa-Chr3:1635213 2.64E-44 transposed
Csa05g00565 Csa-Chr5:3701929 Csa03g00208 Csa-Chr3:1635213 7.13E-61 transposed
Csa05g02833 Csa-Chr5:28772334 Csa03g00208 Csa-Chr3:1635213 1.52E-27 transposed
Csa06g03797 Csa-Chr6:30163793 Csa03g00208 Csa-Chr3:1635213 9.61E-44 transposed
Csa07g01149 Csa-Chr7:11304295 Csa03g00208 Csa-Chr3:1635213 2.58E-44 transposed
Csa07g01293 Csa-Chr7:12873581 Csa03g00208 Csa-Chr3:1635213 5.31E-07 transposed
Csa07g02274 Csa-Chr7:21176159 Csa03g00208 Csa-Chr3:1635213 7.02E-40 transposed
Csa03g00208 Csa-Chr3:1635213 Csa03g01027 Csa-Chr3:8267429 1.26E-35 wgd
       

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
Vvi2g599 . . . . . . Bma07g00979 Bma14g00130 Cmo06g00686 Cmo16g01137 . . . . . Cpe14g00898 . Bhi11g00106 . . . . Mch10g1617 . Cla10g00190 Cam10g0195 Cec10g0201 Cco10g0202 Clacu10g0199 Cmu10g1044 Cre10g0450 Cone8ag0446 Cone12ag0435 . . Lsi07g01234 . . Cme06g02503 Blo03g00825 Blo19g00160 Bda07g00115 Bda09g00693 Bpe08g00863 Bpe11g00354 . . . . . Cma06g00659 Cma16g01087 . Car16g01029 . . . . . . . . . . . . . . . . . Csa03g00208 Chy06g02112 .
       

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
OG0004846 3 2 2 2 2 1 2 1 1 1 1 1 2 1 0 2 1 2 1 1 1 1 1 1 1 1 1 2 1 1 40
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa03g00208 Csa_Chr03 FPKM 4.715827 4.136572 2.302232 2.871761 0.0 0.0 0.328476 0.537623 1.040332 0.834723