Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Bma04g00341 ATGACTCCATCTAATTTGGCAGGGCAGTTTGGTGATACGACTTACACCAAGGTTTTTGTTGGAGGGTTGGCTTGGGAAACCCAGAAAGAAACGATGAAGAAGTATTTTGAACAGTTTGGTGATATCTTGGAGGCTGTTGTCATTACTGATAAAGCCACTGGAAGATCCAAGGGCTATGGATTTGTGACTTTTCGAGAACCCGAAGCCGCCATGAAAGCTTGTGTGGATGCTGCTCCTGTTATAGATGGATCGGGAAATCAGGTTGTGGATCGACGTGGTGCAATGATTTTGCGGTTCTTACCTGCGATTGGTGAACGCAAGTATGACTGGGAGAAGAGGCAGGTGTTTGCGTTGTCGCCGACAGAAATTGGTACTGTATTGAACTTGGGTCCCAAAGATTCATGTGAATTCTTTCACGATCCTTCAATATTATCGAGTAAGGCTGGTCAGGTGAAGAAAAGCTTATCAATTAAGTCAATTGGAGATGGTACCGGGTACTTCGTCTCTTTGATGAATGTTTTCGCGGCTGTTGTTGAGCCCAAGCTAGTGAATGTTCTTGTAAGGCGATTAAATCAGATAGCACCTTTGGAAAGTCTACGCCATGTGAAGAGAGTTCAGAAGAAATGTATTGATGGAACAACTCAGTTAGCTGTGATCTTATGTCAAGCCAATGAAAATGATTCTCACCCAGATAGCATACCTCACAATGTACGAGAGCTTATGAATTTCCATCAGTTGAGTGCTTTTATTACAAAAGTTTGCAAAGAAGCAGCGTCATCAAAAGAACAGTGGGAAGAACAATGCAAGCTTTGGCCAACATCCTATCATCCACCAACCTACAAGATTGATGGTGTTGCAGGATTTAGTGAAGAGGACCGACAATCAGTTATCAGCTTTATGAAGTTTGCTGTTGAGTTGGCAAAATATGGTGATGATTTGGTAGTCAATGCTGCAGTAATAGTGGATCCTTCAGTTAAGCAGATCATAGCAAGTGCATGTGATGAAACTTATACTCGAAATACACCTGGAAGGAAACCATGCTTCAATAATTGCTCCTCCCGTTTCGATAACTCTGAGTTGCCATCGAATGGTTGTCTCGAAGAACTGAATGAGACTCAGAATCAGAATCATAGTGGTGTATCTTGTCTATATCCTTGGCAGTGGGATAAACAACCATCACATATGGACAATTTTCATTATTTGCATCCCTTGAGACACGCGGCAATGGTTGCTATTGAATCGTCTGCTGCTCGGGACAGAAAACTATTTCCTGGTTATGGACAAACAGTTGAATTAAGCCAGACGGAGGCCTCATCTGCCGGTTCTTCCTCAAAACGACAAAAGACTGATCTGAAAAATGCTGAGAATGATGAGAATATTACTTCTCCTGATGAAAGTGCTTCTTCCCTTCTGTCCAGGCCTTACCTGTGCACTGGCTATGACATGTACTTGGTATGGGAGCCATGTGTTATGTGTGCAATGGCACTTGTCCACCAGAGAATGAGAAGAATATTTTATGCCTATCCGAACCCAAATGTGGGTGCATTGGGCAGTGTTTACAGACTGCAGGGAGAAAAGAGCTTGAACCATCATTATGCTGTTTTCAGGGTGCTACTGCCTGAACCATAA 1629 42.91 MTPSNLAGQFGDTTYTKVFVGGLAWETQKETMKKYFEQFGDILEAVVITDKATGRSKGYGFVTFREPEAAMKACVDAAPVIDGSGNQVVDRRGAMILRFLPAIGERKYDWEKRQVFALSPTEIGTVLNLGPKDSCEFFHDPSILSSKAGQVKKSLSIKSIGDGTGYFVSLMNVFAAVVEPKLVNVLVRRLNQIAPLESLRHVKRVQKKCIDGTTQLAVILCQANENDSHPDSIPHNVRELMNFHQLSAFITKVCKEAASSKEQWEEQCKLWPTSYHPPTYKIDGVAGFSEEDRQSVISFMKFAVELAKYGDDLVVNAAVIVDPSVKQIIASACDETYTRNTPGRKPCFNNCSSRFDNSELPSNGCLEELNETQNQNHSGVSCLYPWQWDKQPSHMDNFHYLHPLRHAAMVAIESSAARDRKLFPGYGQTVELSQTEASSAGSSSKRQKTDLKNAENDENITSPDESASSLLSRPYLCTGYDMYLVWEPCVMCAMALVHQRMRRIFYAYPNPNVGALGSVYRLQGEKSLNHHYAVFRVLLPEP 542
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 2765923 2783986 - Bma018800.1 Bma04g00341 80710

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Bma04g00341 542 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 18 73 IPR000504 GO:0003723
Bma04g00341 542 Gene3D Transcriptional Coactivator Pc4; Chain A 61 191 IPR009044 GO:0003677|GO:0006355
Bma04g00341 542 ProSiteProfiles Cytidine and deoxycytidylate deaminases domain profile. 395 519 IPR002125 -
Bma04g00341 542 SUPERFAMILY RNA-binding domain, RBD 12 75 IPR035979 GO:0003676
Bma04g00341 542 CDD RRM_RBM24_RBM38_like 16 83 - -
Bma04g00341 542 PANTHER INACTIVE TRNA-SPECIFIC ADENOSINE DEAMINASE-LIKE PROTEIN 3-RELATED 172 538 - -
Bma04g00341 542 SUPERFAMILY ssDNA-binding transcriptional regulator domain 84 170 IPR009044 GO:0003677|GO:0006355
Bma04g00341 542 MobiDBLite consensus disorder prediction 433 467 - -
Bma04g00341 542 SMART rrm1_1 17 92 IPR000504 GO:0003723
Bma04g00341 542 Pfam Whirly transcription factor 83 176 IPR013742 GO:0003697|GO:0006355|GO:0006952
Bma04g00341 542 MobiDBLite consensus disorder prediction 433 447 - -
Bma04g00341 542 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 16 88 IPR000504 GO:0003723
Bma04g00341 542 PANTHER CYTOSINE DEAMINASE FAMILY MEMBER 172 538 - -
Bma04g00341 542 Pfam Cytidine and deoxycytidylate deaminase zinc-binding region 298 507 IPR002125 -
Bma04g00341 542 Gene3D Cytidine Deaminase, domain 2 285 541 - -
Bma04g00341 542 Gene3D - 13 60 IPR012677 -
Bma04g00341 542 SUPERFAMILY Cytidine deaminase-like 269 540 IPR016193 GO:0003824
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Bma04g00341 K15442 TAD3, ADAT3; tRNA-specific adenosine deaminase 3 - qsu:112016311 467.233
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Bma04g00341 Bma-Chr4:2765923 Bma05g00015 Bma-Chr5:1797048 7.94E-36 dispersed
Bma06g00662 Bma-Chr6:35667034 Bma04g00341 Bma-Chr4:2765923 2.14E-24 transposed
Bma06g00672 Bma-Chr6:36008831 Bma04g00341 Bma-Chr4:2765923 2.18E-24 transposed
Bma01g02455 Bma-Chr1:82148250 Bma04g00341 Bma-Chr4:2765923 7.80E-48 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
Vvi18g1754 . . . Bda03g00363 . Bpe04g00325 Bma04g00341 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
       

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
OG0007713 2 3 1 1 1 1 0 1 1 1 1 1 1 0 1 1 1 2 1 1 1 1 1 1 2 0 1 1 2 1 33
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
57137 PF00383 dCMP_cyt_deam_1 1.50E-07 CL0109 Bma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Bma04g00341 Bma_Chr04 FPKM 13.1 9.327537 0.0 0.0 14.299217 15.929214 12.504053 0.0 0.0 0.248893