Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa04g02709 ATGAAAGGCGGTAAATCGAGGTCGGAGTCGAAGAAAGCAGACACCAAGCTTGCTGTGAAAAAAGGTGCAGCGGCTAAGAAAGGGAGTAAGAAGGCAGGGAAAGATCCTAACAAACCCAAGAGGCCTGCCAGCGCCTTCTTCGTTTTTATGGAAGAGTTCAGGAAGAAGTTCAATGAGGAGAATCCGAACAACAAAGCAGTGTCTGCTGTTGGTAAAGCTGCTGGACAGAAATGGAAATCAATGTCAGATGCTGAAAAAGCACCTTACATTGCTAAGGCTGACAAGAGGAAGGTTGAATATGAAAAAAACATGAAGGCCTATAACAAGAAACAGGCCAGTGGAGCCAATGCTGCAGAAGAAGATGAATCTGAGAAATCAATGTCTGAGGTGAATGATGATGAGGATGGAGATGAGGGCAGCGAAGAGGACGATGACGAGTGA 441 45.58 MKGGKSRSESKKADTKLAVKKGAAAKKGSKKAGKDPNKPKRPASAFFVFMEEFRKKFNEENPNNKAVSAVGKAAGQKWKSMSDAEKAPYIAKADKRKVEYEKNMKAYNKKQASGANAAEEDESEKSMSEVNDDEDGDEGSEEDDDE* 147
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 26186113 26189578 + CsaV3_4G037350.1 Csa04g02709 528319

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa04g02709 146 ProSiteProfiles HMG boxes A and B DNA-binding domains profile. 39 108 IPR009071 -
Csa04g02709 146 SUPERFAMILY HMG-box 25 113 IPR036910 -
Csa04g02709 146 Gene3D High mobility group box domain 22 124 IPR036910 -
Csa04g02709 146 MobiDBLite consensus disorder prediction 1 43 - -
Csa04g02709 146 CDD HMGB-UBF_HMG-box 39 105 - -
Csa04g02709 146 PANTHER HIGH MOBILITY GROUP B PROTEIN 2-RELATED 1 144 - -
Csa04g02709 146 PANTHER HIGH MOBILITY GROUP B PROTEIN 4-RELATED 1 144 IPR031061 -
Csa04g02709 146 MobiDBLite consensus disorder prediction 57 146 - -
Csa04g02709 146 Pfam HMG (high mobility group) box 39 108 IPR009071 -
Csa04g02709 146 SMART hmgende2 38 109 IPR009071 -
Csa04g02709 146 MobiDBLite consensus disorder prediction 1 21 - -
Csa04g02709 146 Coils Coil 90 110 - -
Csa04g02709 146 MobiDBLite consensus disorder prediction 88 106 - -
Csa04g02709 146 MobiDBLite consensus disorder prediction 125 146 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa04g02709 K25507 HMGBP; high mobility group B protein, plant - csv:101203891 235.728
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g00029 Csa-Chr3:349350 Csa04g02709 Csa-Chr4:26186113 3.90E-51 dispersed
Csa04g01616 Csa-Chr4:15516631 Csa04g02709 Csa-Chr4:26186113 3.71E-41 dispersed
Csa04g02709 Csa-Chr4:26186113 Csa05g01469 Csa-Chr5:16588190 3.21E-24 dispersed
       

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
Vvi18g85 . Blo12g00851 . Bda03g00323 Bpe02g00306 Bpe04g00284 Bma04g00290 . . . Cma01g02021 Cma09g00049 Car01g01588 . . Cpe06g00019 . . . . . . . . . . . . . . . Cone4ag2024 Cone7ag1941 Cone17ag1458 . Lsi04g01812 Csa04g02709 . . . . Bda11g00975 . . . . . Sed01g2431 Cmo01g02078 Cmo09g00052 . . . Car09g00041 . . Bhi09g02874 Tan01g5116 Cmetu06g2583 . . Mch11g0052 . Cla11g01828 Cam11g1895 Cec11g1920 Cco11g1929 Clacu11g2059 Cmu11g1864 Cre11g2271 . . Chy07g00398 .
       

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
OG0002005 3 3 2 2 2 0 4 1 0 2 2 1 3 2 2 3 0 5 2 1 2 2 2 2 2 2 2 2 1 2 59
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
31648 PF00505 HMG_box 6.80E-24 CL0114 Csa TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa04g02709 Csa_Chr04 FPKM 6.708361 6.995029 12.851322 11.954679 26.718735 22.994886 22.203537 11.056101 11.55536 12.466854