Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma16g01087 ATGGATTCGCAGCAGAACAATTTGTTTGAAACGGCATCTCAACCTGATACGGGGAACGACGCCTACACATTTCTTGAGTTCAACACACAGGGAGAAGACTTCGATTACCCTGAATTTCGCGACCCTATTAGGTCCCCTGTAGCGTGGCCGACTCCTTCCGATTCGTTAGCGGATCACACGGACCGTGGTGGTGGGTCGGATCATCAGTCTGATGCATCTCCGGTTTCGGCTGCACCGGGAAGTGCCACGAAGGGCCGGACTGGAGGAGGTTCAGGGAATAGCGGCGGTAATAATCAAATGGTTGACGTATTGGCTGCCGGGATGAGTGGGTTGACGTTTGAGGATACGGGGGATGATGATAATTATGAGTTTGGGAAGGGAAATTTCACGGAGCATGCTTGTAGGTATTGTGGGATTTCGAATCCGGCTTGCGTTGTGAGGTGTAACGTGCCGTCATGCCGTAAGTGGTTCTGCAATTCGCGAGGGAACACGTCTGGGTCCCATATTGTGAATCACCTGGTCCGGGCAAAACATAAAGAAGTTTGTCTTCACAAAGACAGTCCTCTGGGAGAAACAATTCTCGAGTGTTACAATTGTGGGTGCCGAAATGTATTCCTCCTTGGATTTATTTCTGCAAAGACAGAAAGTGTGGTTGTTCTACTCTGTAGGGAACCTTGCTTGAGTGTTAATGCTCTTAAGGATATGAATTGGGACTTGAGTCAGTGGTGCCCTCTAATTGATGATAGGTGCTTCTTGCAGTGGCTGGTTAAGATTCCTTCTGAGCAAGAGCAGTTGAGAGCACGGCAAATTAGTGCCCAACAAATAAATAAAATTGAGGAACTTTGGAAGACAAACCCAGATGCATCTCTTGAAGATCTTGAAAAACCTGGTGTGGATGATGAACCACAGCCCGTAGCATTAAAATATGAAGATGCTTATCAGTATCAAAATGTATTTGCACCTCTTATCAAGCTTGAAGCCGACTACGATAAAATGATGAAAGAATCTCAAAGCAAGGATAATGTGACTGTACGTTGGGACATTGGTCTTAACAAGAAGAGAATAGCTTATTTTGTCTTTCCAAAGGAGGACAATGAGTTGCGCCTTGTACCTGGAGATGAGTTGAGGTTACGTTATTCTGGTGATGCAGCTCATCCAGCTTGGCATTCTGTTGGACATGTGATCAAGCTAACTGCACAGGAAGAGGTTGCACTCGAGCTACGTGCTAGCCAGGGGGTTCCAGTTGATGTGGTCCATGGTTTTAGTGTTGATTTTGTGTGGAAGAGTACTAGTTTCGATCGAATGCAGGGAGCTATGAAGACATTTGCTGTTGATGAGACCAGTGTTAGTGGTTATATCTACCATCACTTATTAGGACACGAAGTGGAGGTTCAGATGGTTCGCAATACACTTCCACGTCGTTTTGGTGCGCCTGGTCTCCCAGAACTCAATGCATCTCAAGTTTTTGCTGTAAAAAGTGTTCTTCAGAAGCCAATAAGCTTGATTCAGGGCCCTCCGGGTACTGGGAAAACTGTAACTTCTGCTGCCATAGTGTATCATATGGCCAAACAAGGCCAAGGGCAGGTACTGGTCTGTGCCCCTAGTAATGTGGCTGTGGACCAACTGGCAGAGAAGATAAGTGCAACTGGGTTAAAGGTTGTTAGGCTATGTGCAAAATCAAGAGAAGCTGTAAGTTCTCCTGTGGAACACTTAACCCTTCACTATCAGGTTCGACATCTTGACACATCGGAAAGAAGTGAACTTCATAAGTTGCAACAATTGAAAGATGAACAAGGGGAGCTGTCTAGCAGTGATGAGAAAAAATATAAAGCCCTTAAGAGAGCAACAGAGAGGGAAATTTCCCAGAGTGCAGATGTTATTTGTTGCACATGTGTCGGTGCTGGAGATCCTCGCCTGTCAAATTTTAGATTTCGCCAGGTTCTTATCGATGAGTCTACTCAGGCAACCGAACCTGAATGTCTTATTCCTCTTGTTCTTGGAGCAAAGCAGGCATGTCGAGCTGTTCTTGTTGGTGACCATTGCCAACTGGGACCTGTCATTATGTGCAAAAAAGCAGCACGTGCAGGGCTGGCTCAATCCCTTTTTGAGCGTCTTGTTCTTCTTGGTGTGAAGCCAATTAGATTGCAGGTCCAATATCGTATGCACCCATCCCTTTCTGAATTTCCTTCCAACAGCTTCTACGAGGGCACACTACAAAATGGAGTTACAATCAATGAAAGGCAATCGACAGGCATCGACTTTCCATGGCCAGTTCCCAACCGTCCAATGTTCTTCTATGTTCAGATGGGACAAGAGGAGATAAGTGCCAGTGGAACTTCCTACCTAAATAGGACCGAGGCAGCAAATGTAGAAAAAATTGTGACCACTTTCTTAAGAAGTGGTGTAGTCCCTAGTCAGATTGGAGTTATTACACCATATGAGGGCCAACGAGCTTACATTGTGAACTATATGTCAAGAAATGGTGCTCTCAGACAGCAACTTTACAAGGAAATTGAGGTTGCAAGTGTGGATTCATTTCAAGGAAGGGAAAAAGATTACATCATATTGTCATGCGTAAGGAGTAACGAACATCAGGGCATTGGATTCCTGAACGATCCTCGCAGGCTCAATGTGGCTTTAACACGAGCTCGATATGGTATTGTCATTCTTGGAAACCCAAAGGTTTTGAGTAAACAGCCTCTGTGGAATAGCTTGTTGACACATTACAAGGAACATGAATGCTTGGTTGAGGGTCCATTGAATAACTTGAAACAAAGCATGATTCAGTTTCAGAAGCCTAAAAAGATATACAATGATCGGCGTCTTTTCTTTGCTGGTGGTCCTGGAGTTGTCCCCAATGATAATTTAGGGCCTGTTGCCCCATCTGGTCCTAATGCTGATAGAAGAAGTAGTCGTGGTAGAGGTTCGTACTTTCCTCCTCACCTGCCGAATGGAGCGCAAAAGCCTGGAGTGCATGCATCTGGTTATCCCATGCCACGAGTTCCTCTTCCCTCGTTTCATGGTGGTCCCCCGCATCCATATGGAATTCCAACTCGTGGAGCTGTACATGGACCAGTTGGTGCTGTTCCTCATGTTCCTCAACCAGGAAGTAGAGGCTTTGGGGCAGGGCGGGGAAATGTTGGTGCTCCTATTGGTAGTCAGCTTCCAAATCAGCAAGGCTCTCAACAAAATATTGGAAATCTTGGCTCCACTTTTAACTTTCCTGGTTTGGAGAGTCCCAATAGCCAACCATCAGTGGGTGGTCCGTTGTCTCAACTTGGGTTTGTTAACAATATGCCTGTTCAGCCGCCTACTCAAACATTTCGTGATGGATACTCCATGGGAGGAATTTCGCAGGACTTCTTGGGCGATGACTTTAAAAGCCAGGGATCACATGTTCCATACAATGTTACGGATTTCTCCACTCAGGCCTCTCAAACTGGATATCCCATTGATTATGTTAGTCAAGGAGCACAGGGTGGCTTTCCAGGGAGCTTCCTGAACCAGAATTCTCAATCTGGATATAACCGTTTCGGAACAGGAAATGATTTCATGTCGCAGGACTACATGAACCATGGTTCACAAGGTTTATTTACTCAAGTTGGTTTCAGCGATCCCTCACTAGATGAAGCCTTCCAAAGTCACTATAACGTGACAAATACAAACTCACTACAGTCTCAGGGCATGATGAATTCTCTCTACTCCCAGCCCTTTGCACATTACAATTCACAGCCTTCGACCCAGCAGGCCCCACCACAGCAGCAGCCTCAGCAGGGCCAGAGCTCTCAAAATCAGAAAATTCACTTTAGTGGTTGA 3816 45.75 MDSQQNNLFETASQPDTGNDAYTFLEFNTQGEDFDYPEFRDPIRSPVAWPTPSDSLADHTDRGGGSDHQSDASPVSAAPGSATKGRTGGGSGNSGGNNQMVDVLAAGMSGLTFEDTGDDDNYEFGKGNFTEHACRYCGISNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLSVNALKDMNWDLSQWCPLIDDRCFLQWLVKIPSEQEQLRARQISAQQINKIEELWKTNPDASLEDLEKPGVDDEPQPVALKYEDAYQYQNVFAPLIKLEADYDKMMKESQSKDNVTVRWDIGLNKKRIAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWHSVGHVIKLTAQEEVALELRASQGVPVDVVHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQKPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSERSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLSNFRFRQVLIDESTQATEPECLIPLVLGAKQACRAVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGVKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSTGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNSLLTHYKEHECLVEGPLNNLKQSMIQFQKPKKIYNDRRLFFAGGPGVVPNDNLGPVAPSGPNADRRSSRGRGSYFPPHLPNGAQKPGVHASGYPMPRVPLPSFHGGPPHPYGIPTRGAVHGPVGAVPHVPQPGSRGFGAGRGNVGAPIGSQLPNQQGSQQNIGNLGSTFNFPGLESPNSQPSVGGPLSQLGFVNNMPVQPPTQTFRDGYSMGGISQDFLGDDFKSQGSHVPYNVTDFSTQASQTGYPIDYVSQGAQGGFPGSFLNQNSQSGYNRFGTGNDFMSQDYMNHGSQGLFTQVGFSDPSLDEAFQSHYNVTNTNSLQSQGMMNSLYSQPFAHYNSQPSTQQAPPQQQPQQGQSSQNQKIHFSG 1271
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
16 8352928 8367772 + CmaCh16G010870.1 Cma16g01087 311685

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma16g01087 1271 CDD DEXXQc_UPF1 482 720 - -
Cma16g01087 1271 Pfam RNA helicase UPF1, 1B domain 337 426 IPR040812 -
Cma16g01087 1271 Pfam AAA domain 585 688 IPR041677 GO:0004386
Cma16g01087 1271 Pfam RNA helicase (UPF2 interacting domain) 132 285 IPR018999 GO:0000184|GO:0003723|GO:0003724|GO:0005524|GO:0005737|GO:0008270
Cma16g01087 1271 Gene3D - 446 719 IPR027417 -
Cma16g01087 1271 CDD ZBD_UPF1-like 133 255 IPR018999 GO:0000184|GO:0003723|GO:0003724|GO:0005524|GO:0005737|GO:0008270
Cma16g01087 1271 CDD 1B_UPF1-like 338 425 IPR040812 -
Cma16g01087 1271 Gene3D - 338 426 - -
Cma16g01087 1271 Pfam AAA domain 698 893 IPR041679 -
Cma16g01087 1271 Gene3D - 720 931 IPR027417 -
Cma16g01087 1271 PANTHER REGULATOR OF NONSENSE TRANSCRIPTS 1-LIKE PROTEIN 108 1048 - -
Cma16g01087 1271 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 479 915 IPR027417 -
Cma16g01087 1271 MobiDBLite consensus disorder prediction 953 995 - -
Cma16g01087 1271 MobiDBLite consensus disorder prediction 1 100 - -
Cma16g01087 1271 MobiDBLite consensus disorder prediction 1 26 - -
Cma16g01087 1271 PANTHER DNA2/NAM7 HELICASE FAMILY 108 1048 IPR045055 -
Cma16g01087 1271 MobiDBLite consensus disorder prediction 1237 1271 - -
Cma16g01087 1271 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 491 623 IPR014001 -
Cma16g01087 1271 CDD SF1_C_Upf1 721 910 IPR041679 -
Cma16g01087 1271 Pfam Type III restriction enzyme, res subunit 486 550 IPR006935 GO:0003677|GO:0005524|GO:0016787
Cma16g01087 1271 Gene3D - 568 620 - -
Cma16g01087 1271 MobiDBLite consensus disorder prediction 1057 1086 - -
Cma16g01087 1271 MobiDBLite consensus disorder prediction 86 100 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma16g01087 K14326 UPF1, RENT1; regulator of nonsense transcripts 1 [EC:3.6.4.13 5.6.2.3] - csv:101214107 2485.68
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma06g00659 Cma16g01087 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma02g01029 Cma-Chr2:6119964 Cma16g01087 Cma-Chr16:8352928 2.76E-59 dispersed
Cma04g01350 Cma-Chr4:6876768 Cma16g01087 Cma-Chr16:8352928 2.33E-27 dispersed
Cma15g01399 Cma-Chr15:8819121 Cma16g01087 Cma-Chr16:8352928 2.64E-57 dispersed
Cma16g01087 Cma-Chr16:8352928 Cma17g00622 Cma-Chr17:5297127 2.46E-42 dispersed
Cma18g00878 Cma-Chr18:7596224 Cma16g01087 Cma-Chr16:8352928 7.77E-28 dispersed
Cma16g01087 Cma-Chr16:8352928 Cma06g00837 Cma-Chr6:4592850 0 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
Cma16g01087 Cma_Chr16 FPKM 15.270348 17.64365 16.01915 16.298239 16.020493 16.680984 15.015216 21.709999 19.811853 19.202915