Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi07g01234 ATGGATTCGCAGCAGAACAATTTGTTTGAAACGGCATCTCAACCCGACACAGGCAACGACGCCTACACATTTCTTGAGTTCAACACACAGGGGGAAGACTTCGATTACCCTGAATTTCGCGATCCTATTAGGTCCCCCGTAGCGTGGCCGACTCCTTCCGATTCGTTAGCGGATCATACGGACCGTGGTGGCGGGTCCGATCACCAGTCTGATGCGTCTCCGGTTTCGGCTGCACCAGGAAGTGCCACGAAAGGCCGGACTGGAGGAGGTTCGGGGAATACCGGCGGTAATAATCAAATGGTTGATTCATTGGCAGCCGGGATGAGTGGGTTGACGTTTGAGGATACTGGGGATGATGATAATTATGAGTTTGGGAAGGGGAATTTCACGGAGCATGCTTGTAGGTATTGTGGGGTTTCGAACCCGGCTTGCGTTGTGAGGTGTAACGTACCCTCGTGCCGTAAGTGGTTCTGCAATTCGCGAGGGAACACGTCTGGGTCGCATATTGTGAATCATCTGGTCCGAGCAAAGCATAAGGAAGTTTGTCTTCACAAAGATAGTCCTCTGGGAGAGACAATTCTCGAGTGTTACAATTGTGGATGCCGAAATGTATTCCTCCTTGGATTTATTTCTGCAAAGACAGAAAGTGTGGTTGTTCTACTCTGTAGGGAACCTTGCTTAAGTGTAAATGCTCTTAAGGATATGAATTGGGACTTGAGTCAGTGGTGCCCTCTAATTGATGATAGGTGCTTCTTGCAGTGGCTGGTTAAGATTCCTTCTGAGCAAGAGCAGTTGAGGGCACGGCAAATTAGTGCACAACAAATAAATAAAATCGAGGAACTTTGGAAGACAAACCCAGATGCATCCCTTGAAGATCTTGAGAAACCTGGTGTGGATGATGAACCACAACCCGTAGCATTGAAATATGAAGATGCTTATCAGTATCAAAATGTATTTGCACCACTTATCAAGCTTGAAGCTGACTACGATAAAATGATGAAAGAATCTCAGAGCAAGGATAATGTCACTGTACGCTGGGACATTGGCCTGAACAAGAAGAGGATAGCTTATTTTGTCTTTCCAAAGGAGGACAATGAATTGCGTCTTGTACCTGGTGATGAGTTGAGGTTACGTTATTCTGCTAGAGTGCTTGATATTTTTGCAGTTGAAGTTATTTTGGTTCTTTCTGTTATCAAGCTAACTGCACAGGAAGAGGTTGCACTTGAGCTTCGTGCAAGCCAGGGGGTCCCAGTTGATGTGGTCCATGGTTTTAGTGTTGATTTCGTGTGGAAGAGTACTAGCTTCGACCGAATGCAGGGAGCTATGAAGACATTTGCTGTTGACGAGACCAGTGTTAGTGGTTATATCTACCATCACCTATTAGGACATGAAGTGGAGGTTCAGATGGTTCGCAATACACTTCCTCGTCGTTTTGGTGCTCCTGGTCTCCCAGAGCTCAATGCATCCCAAGTCTTTGCTGTAAAAAGTGTTCTTCAGAAGCCAATAAGCTTGATTCAGGGCCCTCCGGGTACTGGAAAAACTGTAACTTCGGCTGCCATAGTGTATCATATGGCCAAACAAGGCCAAGGGCAGGTACTGGTCTGTGCCCCTAGTAATGTGGCTGTGGACCAGCTGGCAGAGAAGATAAGTGCAACTGGGTTGAAGGTTGTTAGGCTATGTGCAAAATCAAGGGAAGCTGTAAGTTCTCCTGTGGAACACTTAACCCTTCACTATCAGGTTCGACATCTTGACACATCGGAAAGAAGTGAACTTCATAAGTTGCAACAATTGAAAGATGAACAAGGGGAGCTGTCTAGCAGTGATGAGAAAAAATATAAAGCCCTTAAGAGAGCAACAGAGAGGGAAATTTCACAGAGTGCAGATGTTATTTGTTGCACATGTGTTGGTGCTGGAGATCCTCGCTTGTCAAATTTTAGATTTCGCCAGGCTGTTCTTGTTGGTGACCATTGCCAACTGGGACCTGTCATTATGTGCAAAAAAGCAGCACGTGCAGGGCTGGCTCAGTCTCTCTTTGAACGTCTTGTTCTTCTTGGTGTGAAGCCAATTAGATTGCAGGTCCAATATCGTATGCACCCATCACTTTCTGAATTTCCTTCTAACAGCTTCTATGAAGGCACACTACAAAATGGAGTTACCATCAACGAAAGGCAATCAACAGGCATTGACTTCCCATGGCCAGTTCCCAACCGTCCAATGTTCTTCTATGTTCAGATGGGACAAGAGGAGATAAGTGCCAGTGGAACTTCCTACCTAAATAGAACTGAGGCAGCAAATGTAGAAAAAATTGTGACCACTTTCTTAAGGAGTGGCGTAATCCCTAGTCAGATTGGAGTTATCACACCGTATGAGGGGCAAAGAGCTTACATTGTGAACTATATGTCAAGAAATGGTGCGCTCAGACAGCAACTTTACAAAGAAATTGAGGTTGCAAGTGTGGATTCATTTCAAGGAAGGGAAAAAGATTACATCATATTGTCATGTGTGAGGAGTAATGAACATCAGGGCATTGGATTCCTTAACGATCCTCGCAGGCTCAATGTGGCTTTAACTCGAGCTCGATATGGTATCGTCATTCTTGGAAACCCAAAGGTTTTGAGTAAACAACCACTGTGGAATAGCTTATTGACGCATTATAAGGAACATGAGTGCTTGGTTGAGGGTCCCTTGAATAACTTGAAACAAAGCATGATTCAATTTCAGAAGCCTAAAAAGATATACAATGATCGGCGTCTTTTCTTTGCTGGTGGGCCTGGAGTTGTGCCTAATGATAATTTTGGACCTGTTGCCCCATCTGGTCCTAATGCTGATAGAAGGAGTAGTCGTGGTAGAGGTTCGTACTTTCCTCCTCACCTGCCGAATGGTGCCCAAAAGCCTGGCGTGCATGCATCTGGTTATCCCATGCCTCGAGTTCCCCTCCCCTCATTTCATGGCGGTCCCCCACAGCCGTATGCAATTCCAACTCGTGGAGCTGTACATGGACCAGTTGGTGCTGTTCCTCATGTTCCTCAACCAGGAAGTAGGGGTTTCGGGGCAGGGCGGGGAAATGCAGGTGCTCCTATTGGTAGTCAGCTTCCAAATCAGCAAGGCTCTCAACAAAATATTGGAAATCTTGGTTCCACTTTTAACTTTCCTGGTTTGGAGAGTCCCAATAGCCAACCATCAGTAGGTGGTCCATTGTCTCAACTTGGGTTTGTTAACAATATGCCTGTTCAGCCACCTACTCAAACATTTCGTGATGGGTACTCCATGGGAGGAATTTCTCAGGACTTCTTGGGCGATGACTTCAAAAGCCAGGGATCACATGTTCCATATAATGTCACTGATTTCTCCACTCAGGCATCTCAAACTGGATATCCCATTGATTATGTCAGTCAAGGAGCGCAGGGTGGCTTTCCAGGGAGCTTCCTGAACCAGAATTCTCAATCTGGATATTCCCGTTTTGGAACAGGAAATGATTTCATGTCACAGGACTACATGAACCATGGTTCGCAAGGTTTATTTACTCAAGTTGGTTTCAGCGATCCCTCACTAGATGAAGCCTCCCAAAGTCACTATAACGTGACCAATGCAAACCCCCTACAGTCTCAGGTTTCTTTTAATGCTCTGCAGATTTCGTAG 3639 45.67 MDSQQNNLFETASQPDTGNDAYTFLEFNTQGEDFDYPEFRDPIRSPVAWPTPSDSLADHTDRGGGSDHQSDASPVSAAPGSATKGRTGGGSGNTGGNNQMVDSLAAGMSGLTFEDTGDDDNYEFGKGNFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLSVNALKDMNWDLSQWCPLIDDRCFLQWLVKIPSEQEQLRARQISAQQINKIEELWKTNPDASLEDLEKPGVDDEPQPVALKYEDAYQYQNVFAPLIKLEADYDKMMKESQSKDNVTVRWDIGLNKKRIAYFVFPKEDNELRLVPGDELRLRYSARVLDIFAVEVILVLSVIKLTAQEEVALELRASQGVPVDVVHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQKPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSERSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLSNFRFRQAVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGVKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSTGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVIPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNSLLTHYKEHECLVEGPLNNLKQSMIQFQKPKKIYNDRRLFFAGGPGVVPNDNFGPVAPSGPNADRRSSRGRGSYFPPHLPNGAQKPGVHASGYPMPRVPLPSFHGGPPQPYAIPTRGAVHGPVGAVPHVPQPGSRGFGAGRGNAGAPIGSQLPNQQGSQQNIGNLGSTFNFPGLESPNSQPSVGGPLSQLGFVNNMPVQPPTQTFRDGYSMGGISQDFLGDDFKSQGSHVPYNVTDFSTQASQTGYPIDYVSQGAQGGFPGSFLNQNSQSGYSRFGTGNDFMSQDYMNHGSQGLFTQVGFSDPSLDEASQSHYNVTNANPLQSQVSFNALQIS 1212
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
7 17996323 18010185 + Lsi07G012340.1 Lsi07g01234 667656

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi07g01234 1212 Pfam RNA helicase (UPF2 interacting domain) 132 285 IPR018999 GO:0000184|GO:0003723|GO:0003724|GO:0005524|GO:0005737|GO:0008270
Lsi07g01234 1212 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 482 891 IPR027417 -
Lsi07g01234 1212 MobiDBLite consensus disorder prediction 86 101 - -
Lsi07g01234 1212 MobiDBLite consensus disorder prediction 1012 1064 - -
Lsi07g01234 1212 CDD ZBD_UPF1-like 133 255 IPR018999 GO:0000184|GO:0003723|GO:0003724|GO:0005524|GO:0005737|GO:0008270
Lsi07g01234 1212 MobiDBLite consensus disorder prediction 1027 1064 - -
Lsi07g01234 1212 MobiDBLite consensus disorder prediction 1 101 - -
Lsi07g01234 1212 PANTHER REGULATOR OF NONSENSE TRANSCRIPTS 1-LIKE PROTEIN 108 1020 - -
Lsi07g01234 1212 Gene3D - 571 623 - -
Lsi07g01234 1212 MobiDBLite consensus disorder prediction 930 973 - -
Lsi07g01234 1212 Gene3D - 449 695 IPR027417 -
Lsi07g01234 1212 Pfam AAA domain 486 606 IPR041677 GO:0004386
Lsi07g01234 1212 CDD 1B_UPF1-like 338 428 IPR040812 -
Lsi07g01234 1212 Pfam RNA helicase UPF1, 1B domain 337 429 IPR040812 -
Lsi07g01234 1212 Gene3D - 338 429 - -
Lsi07g01234 1212 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 494 626 IPR014001 -
Lsi07g01234 1212 Pfam AAA domain 674 869 IPR041679 -
Lsi07g01234 1212 MobiDBLite consensus disorder prediction 1 26 - -
Lsi07g01234 1212 PANTHER DNA2/NAM7 HELICASE FAMILY 108 1020 IPR045055 -
Lsi07g01234 1212 CDD DEXXQc_UPF1 485 696 - -
Lsi07g01234 1212 CDD SF1_C_Upf1 697 886 IPR041679 -
Lsi07g01234 1212 Gene3D - 696 907 IPR027417 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi07g01234 K14326 UPF1, RENT1; regulator of nonsense transcripts 1 [EC:3.6.4.13 5.6.2.3] - csv:101214107 2351.63
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi07g01234 Lsi-Chr7:17996323 Lsi04g02351 Lsi-Chr4:30690052 1.09E-34 dispersed
Lsi11g00034 Lsi-Chr11:352634 Lsi07g01234 Lsi-Chr7:17996323 2.64E-08 dispersed
Lsi01g01888 Lsi-Chr1:21739022 Lsi07g01234 Lsi-Chr7:17996323 1.43E-33 transposed
Lsi02g02824 Lsi-Chr2:34426409 Lsi07g01234 Lsi-Chr7:17996323 2.94E-27 transposed
Lsi03g01700 Lsi-Chr3:28314401 Lsi07g01234 Lsi-Chr7:17996323 5.69E-47 transposed
Lsi04g00048 Lsi-Chr4:618513 Lsi07g01234 Lsi-Chr7:17996323 1.06E-20 transposed
Lsi09g00571 Lsi-Chr9:6159636 Lsi07g01234 Lsi-Chr7:17996323 1.23E-49 transposed
Lsi09g01306 Lsi-Chr9:20930178 Lsi07g01234 Lsi-Chr7:17996323 6.40E-40 transposed
Lsi05g01908 Lsi-Chr5:26220933 Lsi07g01234 Lsi-Chr7:17996323 1.16E-26 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
Lsi07g01234 Lsi_Chr07 FPKM 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.861637