Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Bma04g00028 ATGCGCCTCAAACCCACCTTCCGAATCATGTCCAACTCTCTGTCATCCTTACTTCACCGCTGCAAGTTTTCAACTTTACGACCAGATTCAAGCCTGACGACTCCAAATATTGAACACATTTTAATTGCAGAGAATAAGATATATTCCCATCTTTGCCAAGCATGCATTCGACAATGCAGGATGATCAAAGCCCATCACCCGTATGATGAAAAGCCTCACAGAGTGGCTCAAGCTTTTAGAACAGCCAAGGTCATCCATGCCAGCGGATTGAAATTTGGTATTGCTTCAAAAGGGCTGCTAGGAAATGCCATTTTCGACTTTTATGCTAAGTGCGGGAGTAGGGAATTGGCAGAGAATGTGTTTGTTCGGCTTGAGAAGAGAGATGTGTTTGCATGGAACTCTCTGCTCTCCATGTACTTAAGGCGCGGATTTCTGAGCCAAGTTTTGCAGTCTTTTGGATCATTATTGGCTCGGGAAGTGTCGCCAAATGAATTCACATTTGCGATGGTTTCGTCTGCATGTGCGAGTCTGGGAGATTTAGACAATGGCAGACGGGTACATTGTGGAGTTATTAAGAGGGGGTTGGAGCTCATTTCTTTTTGCCAAGGTGCTCTCATTGATATGTATGCTAAGTGCAATTTTTTAAGCGATGCTCGCCGAATTTTCGATTGTGCAGTATACTTGGACACAGTTTCTTGGACTGCCATGATTGCTGCCTATGTTCAAGTTGGTCAGTCTGAAGAGGCTATCGTGGTGTTTGATCAGATGCAAAATCTTGGCATTGTACCCGATCAAGTGGCAATTGTGACTGTCATAAATGCTTATGTTTCTCTTGGAAGGCTTGCCACTGCTCGTGCGTTGTTTGCTGAGCTTCCAAACCCAAACGTTGTTGCTTGGAATGTGATGATTTCAGGGCATGCCAAGGGAGAAGAAGAGGAAGAAGCTATTTCATTTTTTCTAAGAATGAGAAAAGCTGGAGTCAGATCCACCAGATCTACTCTAGGAAGTGTTTTAAGTGCCATCGCTAATTTATCGTTCTTCCACTATGGCTTACTGGTTCATGCCGAGGCAATTAAAGAAGGGTTGGATTCCAATTTCTATGTTGGAAGTTCGTTGGTGAATATGTATGCCAAATGCTGTAACATGAATGAGGCAAAAGTGGTTTTCGATTGTTTAAGCGACAAGAACCTTGTTTTGTGGAATGCAATGCTTGGGGGTTACATACAGAACGGGAAAGCACGTGAAGTCATTGAAGTGTTCTTTCACATGATGAAATTCGGTCCTCCTGCCGACGAATATACGTACACAAGTATCTTTAGTGCTTGTGCGTCTTGGGAATATCATGAAATTGGTCGACAACTTCATACAGTAGTGATAAAGAACCAGATGGCATCAAATTTATTTGTCGGAAATGCGTTGATAGACATGTATTCAAAGTCGGGTGCTCTGAAACAAGCTAGAAAACATTTTGAATCGATGCGGCATCACGACAGTATTTCTTGGAATTCGATTATTGTAGGGTATGTGCAGGAAGAGGAGGAGGAAGAAGCTTTCTTCATGTTCAAAAGGATGAATTCAAATGGGATTTTGCCAGATGAGGTGTCTTTGGCAAGCATACTCAGTGCTTGTGCAAATGTTAAAGTATTGGAGCAGGGCCAGCAAATCCACTGCATATCACTCAAAGCGGGTTTAGAAACTAGCATTTATGTAGGAAGCTCCCTTATCGACATGTATAGCAAATCCGGAGGCATCGAAGCTGCTCGGAAAGTTTTTTCTTCCATGCCTCTCCACTCAGTTGTCTCGATGAATGCTCTAATGGCTGGGTATACTCAAGGAAACTTGGAAGAAACACTAAAGCTCTTTCGAGTAATGCAAGAAACGGAAATAAAACCAACAGAAATTACTTTCAGTATCCTTTTAGATGCATGCAGTGGAGTGGCTTTGCTGTCATTGGGTAAGCAAATACACTCTTCAGTTCTTAAGTGGGGCCTTTTATGTGTTAGTGATATATTGGATATATCTCTATTGAGTATGTATATAAACTACCAGAGGAAAAAAGAGGCAGATGTTATTTTCTCAGAGTTCCCATATCCGAAGAGCAGAGTATTATGGACTGCCATAATTTCAGGATTTGCTCAAAATAATTACTGTAAGGAGGCTTATAGATATTATCAGGGCATGCGGGGCGAGAATCTCGTGCCGGACCAAGCCACGTTTGCCAGCATTCTTCGAGCATGTGCTGTATTAGCTTCTTTGACGAATGGAAGGGAAGTGCATTCGCTTATTTTTCACACGGGTTTTGACTTGGACGAATTAACATGCAGTGCTCTCGTAGATATGTATGCAAAATGCGGAGATGTAAGAAGTTCGATGCAGGTTTTCGAAGAAATGGGTAGCAAGAACGACGTGATTTCTTGGAACTCGATGATAGTCGGGCTAGCCAAGAATGGATATGCAGAAAACGCACTCAAGATGTTTGAAGAGATGAATAGATCAAATGTTTTGCCAGATGAAGTCACTTTCCTTGGGGTTCTTAATGCTTGTAGTCATGCAGGGAAAGTTTTGGAAGGCCGACAAATCTTCGACTCCATGGTTAACAGCTACGGAATCGTTCCTCGGAGCGATCATAATGCATGCATGGTCGATCTTCTTGGACGGTGGGGATTTCTGGAAGAAGCTTGGGCTTTCATCAACGGACTAAATAGTGAAGCAGATGGTATGGTATGGGCGGCATTTCTTGGAGCCTGCAGAATACATGGAGACGAAGAGAGAGGGAGGCGTGCAGCTGAGAAACTGATGGAGTTGGATCGCGAGAATTCATCCTCGTACGTTCTTCTCTCGAATATATATGCAGAATCAGGAAACTGGAAGGGAGCAGGCAGTTTGAGAAAGGAAATGGAGGAAAAAGGAGTGAAAAAAGTGGCTGGATGTAGCTGGATGTAG 2943 43.02 MRLKPTFRIMSNSLSSLLHRCKFSTLRPDSSLTTPNIEHILIAENKIYSHLCQACIRQCRMIKAHHPYDEKPHRVAQAFRTAKVIHASGLKFGIASKGLLGNAIFDFYAKCGSRELAENVFVRLEKRDVFAWNSLLSMYLRRGFLSQVLQSFGSLLAREVSPNEFTFAMVSSACASLGDLDNGRRVHCGVIKRGLELISFCQGALIDMYAKCNFLSDARRIFDCAVYLDTVSWTAMIAAYVQVGQSEEAIVVFDQMQNLGIVPDQVAIVTVINAYVSLGRLATARALFAELPNPNVVAWNVMISGHAKGEEEEEAISFFLRMRKAGVRSTRSTLGSVLSAIANLSFFHYGLLVHAEAIKEGLDSNFYVGSSLVNMYAKCCNMNEAKVVFDCLSDKNLVLWNAMLGGYIQNGKAREVIEVFFHMMKFGPPADEYTYTSIFSACASWEYHEIGRQLHTVVIKNQMASNLFVGNALIDMYSKSGALKQARKHFESMRHHDSISWNSIIVGYVQEEEEEEAFFMFKRMNSNGILPDEVSLASILSACANVKVLEQGQQIHCISLKAGLETSIYVGSSLIDMYSKSGGIEAARKVFSSMPLHSVVSMNALMAGYTQGNLEETLKLFRVMQETEIKPTEITFSILLDACSGVALLSLGKQIHSSVLKWGLLCVSDILDISLLSMYINYQRKKEADVIFSEFPYPKSRVLWTAIISGFAQNNYCKEAYRYYQGMRGENLVPDQATFASILRACAVLASLTNGREVHSLIFHTGFDLDELTCSALVDMYAKCGDVRSSMQVFEEMGSKNDVISWNSMIVGLAKNGYAENALKMFEEMNRSNVLPDEVTFLGVLNACSHAGKVLEGRQIFDSMVNSYGIVPRSDHNACMVDLLGRWGFLEEAWAFINGLNSEADGMVWAAFLGACRIHGDEERGRRAAEKLMELDRENSSSYVLLSNIYAESGNWKGAGSLRKEMEEKGVKKVAGCSWM 980
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 324933 327875 - Bma018480.1 Bma04g00028 80397

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 499 533 IPR002885 -
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 231 264 IPR002885 -
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 839 872 IPR002885 -
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 702 735 IPR002885 -
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 773 799 IPR002885 -
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 398 427 IPR002885 -
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 804 838 IPR002885 -
Bma04g00028 980 TIGRFAM PPR: pentatricopeptide repeat domain 297 328 IPR002885 -
Bma04g00028 980 PANTHER OSJNBB0070J16.5 PROTEIN 279 496 - -
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 293 347 IPR011990 GO:0005515
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 754 867 IPR011990 GO:0005515
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 128 162 IPR002885 -
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 396 430 IPR002885 -
Bma04g00028 980 PANTHER OS07G0578800 PROTEIN-RELATED 88 213 IPR045215 GO:0003723|GO:0009451
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 649 753 IPR011990 GO:0005515
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 41 199 IPR011990 GO:0005515
Bma04g00028 980 PANTHER OSJNBB0070J16.5 PROTEIN 597 667 - -
Bma04g00028 980 Pfam PPR repeat 773 800 IPR002885 -
Bma04g00028 980 Pfam PPR repeat 471 495 IPR002885 -
Bma04g00028 980 Pfam PPR repeat 572 595 IPR002885 -
Bma04g00028 980 Pfam PPR repeat 702 731 IPR002885 -
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 837 872 IPR002885 -
Bma04g00028 980 PANTHER OS07G0578800 PROTEIN-RELATED 204 279 IPR045215 GO:0003723|GO:0009451
Bma04g00028 980 PANTHER OS07G0578800 PROTEIN-RELATED 674 762 IPR045215 GO:0003723|GO:0009451
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 939 973 IPR002885 -
Bma04g00028 980 PANTHER OS07G0578800 PROTEIN-RELATED 279 496 IPR045215 GO:0003723|GO:0009451
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 223 292 IPR011990 GO:0005515
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 295 329 IPR002885 -
Bma04g00028 980 Pfam E motif 919 980 IPR046848 -
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 348 448 IPR011990 GO:0005515
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 449 554 IPR011990 GO:0005515
Bma04g00028 980 Gene3D Tetratricopeptide repeat domain 555 648 IPR011990 GO:0005515
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 770 800 IPR002885 -
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 229 263 IPR002885 -
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 497 531 IPR002885 -
Bma04g00028 980 PANTHER OSJNBB0070J16.5 PROTEIN 495 595 - -
Bma04g00028 980 PANTHER OSJNBB0070J16.5 PROTEIN 204 279 - -
Bma04g00028 980 PANTHER OSJNBB0070J16.5 PROTEIN 88 213 - -
Bma04g00028 980 PANTHER OSJNBB0070J16.5 PROTEIN 767 980 - -
Bma04g00028 980 PANTHER OSJNBB0070J16.5 PROTEIN 674 762 - -
Bma04g00028 980 Pfam PPR repeat family 294 342 IPR002885 -
Bma04g00028 980 Pfam PPR repeat family 598 643 IPR002885 -
Bma04g00028 980 Pfam PPR repeat family 395 443 IPR002885 -
Bma04g00028 980 Pfam PPR repeat family 229 276 IPR002885 -
Bma04g00028 980 Pfam PPR repeat family 802 849 IPR002885 -
Bma04g00028 980 Pfam PPR repeat family 497 545 IPR002885 -
Bma04g00028 980 PANTHER OS07G0578800 PROTEIN-RELATED 767 980 IPR045215 GO:0003723|GO:0009451
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 802 836 IPR002885 -
Bma04g00028 980 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 700 734 IPR002885 -
Bma04g00028 980 PANTHER OS07G0578800 PROTEIN-RELATED 597 667 IPR045215 GO:0003723|GO:0009451
Bma04g00028 980 PANTHER OS07G0578800 PROTEIN-RELATED 495 595 IPR045215 GO:0003723|GO:0009451
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Bma04g00028 - - - qsu:112003365 1242.64
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Bma03g00456 Bma-Chr3:3460034 Bma04g00028 Bma-Chr4:324933 1.35E-20 dispersed
Bma04g00028 Bma-Chr4:324933 Bma07g00390 Bma-Chr7:4772840 1.93E-30 dispersed
Bma07g01432 Bma-Chr7:50114408 Bma04g00028 Bma-Chr4:324933 5.56E-47 dispersed
Bma04g00028 Bma-Chr4:324933 Bma09g00219 Bma-Chr9:9460346 4.65E-26 transposed
       

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
Vvi18g1213 . Blo12g01108 . Bda03g00030 . Bpe04g00020 Bma04g00028 . . Cmo12g00334 . Cma09g01089 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cmo09g01097 . . . Car09g00987 . . Bhi09g01512 . . . . . . Cla09g00917 . . . . . . . . . .
       

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
OG0011120 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0 1 1 0 1 1 3 1 0 1 0 1 27
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Bma04g00028 Bma_Chr04 FPKM 3.062312 3.803144 4.106347 4.350893 5.859331 6.531716 7.522093 7.33519 7.211399 8.239262