Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa04g00644 ATGGCCGATTCCACCACTCTTCAACCTCCCGTTACCGGTGCACCTGCCGGACCCACAAAGAAACCAAGAAACAGCCGGAAGGCTTTGAAGGACAAAAACTCTTCACCGGAGGTACCACAATCTCAATCCATGGTTCCGAAAGTTACAGCACCATCGGAAGGAGAGATCCTCTCTCAGAATCAAACTTCTGCTAAGAAACCGAAATCCAAAGCCGCAGCAAAGAAGCAGCCGGCGAACCAATCCTTTGATAAAGATTTGCAGGAAATGCAGGATATGCTTCAGCAGTTGAAGCTCGATAAGGAGAAGACTGAGGAGCTGTTGAAAGAGAAAGATGAGATGCTTAAACAGAAGGATGAAGAGCTTAAAACGAGGGATAAAGAACAGGAAAAACTCCAGATCGAATTGAAGAAATTGCAGAAGTTAAAGGAGTTCAAACCTACTATGAACTTTCCTATGATTCAAATTTTCAAAGACAAAGAACAAGATAAGAAAGAGAAAAAGAAATGCGCGGAAAAGAAGAGGCCGGCACCCCCTTACATCTTATGGTGCAAAGATCAGTGGAACGAGATCAAGAAGGAGAATCCAGAGGCAGATTTCAAGGAAACCTCAAACATTTTGGGGGCTAAATGGAAGACTATTTCAGCAGAGGAGAAGAAGCCATATGAGGAGAAGTACCAAGCTGAAAAAGAAACCTATTTGCGAATCACTTCTAAAGAGAAGCGTGAGAGTGAGGCCATGAAGTTGTTAGAAGAAGAGCAGAAGCAGAAGACGGCTATGGAGCTGCTTGAGCAATACCTTCAATTCAAAGAGGAAGCAGAGAAGGAGAACAAGAAAAAGAAGAAAGAGAAAGATCCATTGAAGCCAAAACAGCCCATGTCTGCATTCTTTCTCTTCTCAAATGAGAGGCGTGCATCTCTTGTTGCTGAAAACAAGAATGTTGTTGAGCTAGCAAAGATAGCAGGAGAGGAGTGGAAGAACATGACAGAGGAGCAGAAAGGTCCTTACGAAGAGATGGCAAAGAAGAACAAGGAAAAATACATGCAGGAAATGGAAATTTACGAGCAGAAAAAGGAGGAGGAAGCAGCAATTCTGAAGAAAGAAGAGGAAGAGCAAATGAAGGTTCAGAAACATGAGGCTTTACTATTGCTAAAAAAGAAAGAAAAAACCGAGACTATTATAAAGAAATCGAAGGAGGAGCGCCAGAAGAAGAAGAAGGAAGGGAAAAATCCTGTCGATCCTAACAAGCCTAAGAAGCCTGCATCCTCCTACATCTTGTTCAGTAAAGAAGCAAGGAAAAGTGTAATGGAGGAGAAGCCTGGAGTTAGCAACTCTACAGTGAATGCACTGATATCAGTGAAATGGAAGGAACTAAGTGAAGAGGAGAGAAAAATATGGAATGACAAAGCTGCAGAAGCCATGGAAGGTTACAAGAAGGAAGTTGAGGAGTACAACAAAAGTGTTGCTGAAATGAAAGGTGATGATGATGATCAAGAGAAGAGTTAG 1503 42.38 MADSTTLQPPVTGAPAGPTKKPRNSRKALKDKNSSPEVPQSQSMVPKVTAPSEGEILSQNQTSAKKPKSKAAAKKQPANQSFDKDLQEMQDMLQQLKLDKEKTEELLKEKDEMLKQKDEELKTRDKEQEKLQIELKKLQKLKEFKPTMNFPMIQIFKDKEQDKKEKKKCAEKKRPAPPYILWCKDQWNEIKKENPEADFKETSNILGAKWKTISAEEKKPYEEKYQAEKETYLRITSKEKRESEAMKLLEEEQKQKTAMELLEQYLQFKEEAEKENKKKKKEKDPLKPKQPMSAFFLFSNERRASLVAENKNVVELAKIAGEEWKNMTEEQKGPYEEMAKKNKEKYMQEMEIYEQKKEEEAAILKKEEEEQMKVQKHEALLLLKKKEKTETIIKKSKEERQKKKKEGKNPVDPNKPKKPASSYILFSKEARKSVMEEKPGVSNSTVNALISVKWKELSEEERKIWNDKAAEAMEGYKKEVEEYNKSVAEMKGDDDDQEKS* 501
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 4306307 4309079 + CsaV3_4G006440.1 Csa04g00644 526254

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa04g00644 500 Coils Coil 386 406 - -
Csa04g00644 500 Coils Coil 336 370 - -
Csa04g00644 500 MobiDBLite consensus disorder prediction 1 97 - -
Csa04g00644 500 SMART hmgende2 415 485 IPR009071 -
Csa04g00644 500 SMART hmgende2 287 355 IPR009071 -
Csa04g00644 500 SMART hmgende2 171 241 IPR009071 -
Csa04g00644 500 PANTHER HIGH MOBILITY GROUP B PROTEIN 13 17 491 IPR044601 GO:0003677
Csa04g00644 500 SUPERFAMILY HMG-box 160 234 IPR036910 -
Csa04g00644 500 Coils Coil 79 141 - -
Csa04g00644 500 Coils Coil 258 282 - -
Csa04g00644 500 SUPERFAMILY HMG-box 275 361 IPR036910 -
Csa04g00644 500 MobiDBLite consensus disorder prediction 34 67 - -
Csa04g00644 500 MobiDBLite consensus disorder prediction 392 425 - -
Csa04g00644 500 CDD HMGB-UBF_HMG-box 291 351 - -
Csa04g00644 500 MobiDBLite consensus disorder prediction 74 88 - -
Csa04g00644 500 SUPERFAMILY HMG-box 411 490 IPR036910 -
Csa04g00644 500 CDD HMG-box 416 481 - -
Csa04g00644 500 CDD HMGB-UBF_HMG-box 174 234 - -
Csa04g00644 500 ProSiteProfiles HMG boxes A and B DNA-binding domains profile. 416 484 IPR009071 -
Csa04g00644 500 Pfam HMG (high mobility group) box 288 353 IPR009071 -
Csa04g00644 500 Pfam HMG (high mobility group) box 173 234 IPR009071 -
Csa04g00644 500 Pfam HMG (high mobility group) box 416 484 IPR009071 -
Csa04g00644 500 ProSiteProfiles HMG boxes A and B DNA-binding domains profile. 172 240 IPR009071 -
Csa04g00644 500 MobiDBLite consensus disorder prediction 392 413 - -
Csa04g00644 500 ProSiteProfiles HMG boxes A and B DNA-binding domains profile. 288 354 IPR009071 -
Csa04g00644 500 PANTHER HIGH MOBILITY GROUP B PROTEIN 13 17 491 - -
Csa04g00644 500 Coils Coil 466 493 - -
Csa04g00644 500 Gene3D High mobility group box domain 174 233 IPR036910 -
Csa04g00644 500 Gene3D High mobility group box domain 395 497 IPR036910 -
Csa04g00644 500 Gene3D High mobility group box domain 271 367 IPR036910 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa04g00644 K09273 UBTF; upstream-binding transcription factor - csv:101204736 755.362
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa04g00644 Csa-Chr4:4306307 Csa04g01616 Csa-Chr4:15516631 7.67E-08 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
Vvi2g113 . . . Bda08g00480 . . . . . . . . . . . Cpe14g00470 . . . . . . . . . . . . . . . . . Cone6ag0841 Cone9ag0838 . . . Cme07g01578 . . . . . . Bma05g00859 . . . . . . . . . . . . . . . . . . . . . . . . . Csa04g00644 Chy07g01166 .
       

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
OG0013737 1 1 1 1 1 0 2 0 0 1 0 0 0 1 1 0 0 2 2 0 1 1 1 1 1 1 1 2 1 1 25
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
31513 PF00505 HMG_box 4.90E-17 CL0114 Csa TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa04g00644 Csa_Chr04 FPKM 15.370833 14.265523 19.533844 21.015429 15.98048 11.38942 23.505495 13.942593 17.070101 16.050947