Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00534 ATGATTCCATATTTTCCACGGATTGCTTACTCTTACTATTTTCAGGCGGTTCCTGGCTCCTTTGCTACAATGACTCGAGTTTACATTGGAAATCTGGATCCACGCGTTACAGAGAGGGATCTTGAAGATGAATTTCGAATGTTCGGTGTTCTTAGGAGTGTTTGGGTTGCTAGAAGGCCTCCAGGATATGCATTTATTGAGTTTGATGATCGCAGGGATGCTCTAGATGCAATACAAGCATTGGATGGGAAAAATGGTTGGCGTGTGGAGCTTTCTCACAACTCTAAAGGCGGTGGAGGAGGTGGTGGTCGTCGTGGCCGGGGTGGTGGCGATGATTTGAAATGTTATGAATGTGGTGAACCTGGTCATTTTGCTCGTGAGTGTCGTTCACGTGGGGGCTCGCGAGGTGTAGGAGGTGGTTTGCGTCGTAGTCCTTCTCCTCGACGCCGTCGGAGTCCAAGCTATGAAAGATATGGCCGCAGGAGCAACAGTCCTCGTGGCAAAAGATCCCCACGACGTCGCAGCATTACACCTCCTAAGCGTGGTCGGAGCTACAGCAGATCTCCTCCATACCGCCATGCTCGTCGTGCTTCACCTTATGCTAATGGGTATGCCTTACTTCTAAGTCATGAGAACTATTCTCTAAAACTATTTGAGATTGATGCTGGAATCAAGGCTGGATGCTGTGCTGGTAGAACTTAG 702 48.86 MIPYFPRIAYSYYFQAVPGSFATMTRVYIGNLDPRVTERDLEDEFRMFGVLRSVWVARRPPGYAFIEFDDRRDALDAIQALDGKNGWRVELSHNSKGGGGGGGRRGRGGGDDLKCYECGEPGHFARECRSRGGSRGVGGGLRRSPSPRRRRSPSYERYGRRSNSPRGKRSPRRRSITPPKRGRSYSRSPPYRHARRASPYANGYALLLSHENYSLKLFEIDAGIKAGCCAGRT 233
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 4939731 4943815 + Lsi04G005340.1 Lsi04g00534 660583

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00534 233 ProSiteProfiles Zinc finger CCHC-type profile. 114 130 IPR001878 GO:0003676|GO:0008270
Lsi04g00534 233 MobiDBLite consensus disorder prediction 149 163 - -
Lsi04g00534 233 SUPERFAMILY RNA-binding domain, RBD 16 109 IPR035979 GO:0003676
Lsi04g00534 233 CDD RRM_SRSF3_like 26 94 - -
Lsi04g00534 233 MobiDBLite consensus disorder prediction 164 190 - -
Lsi04g00534 233 Gene3D - 112 177 - -
Lsi04g00534 233 SUPERFAMILY Retrovirus zinc finger-like domains 107 131 IPR036875 GO:0003676|GO:0008270
Lsi04g00534 233 Pfam Zinc knuckle 114 129 IPR001878 GO:0003676|GO:0008270
Lsi04g00534 233 Gene3D - 16 111 IPR012677 -
Lsi04g00534 233 PANTHER SERINE/ARGININE-RICH SPLICING FACTOR RSZ21 25 204 - -
Lsi04g00534 233 MobiDBLite consensus disorder prediction 89 109 - -
Lsi04g00534 233 SMART c2hcfinal6 114 130 IPR001878 GO:0003676|GO:0008270
Lsi04g00534 233 PANTHER SERINE/ARGININE RICH SPLICING FACTOR 25 204 - -
Lsi04g00534 233 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 25 96 IPR000504 GO:0003723
Lsi04g00534 233 SMART rrm1_1 26 92 IPR000504 GO:0003723
Lsi04g00534 233 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 27 84 IPR000504 GO:0003723
Lsi04g00534 233 MobiDBLite consensus disorder prediction 127 196 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00534 K12896 SRSF7, SFRS7; serine/arginine-rich splicing factor 7 - csv:101213165 252.677
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00534 Lsi-Chr4:4939731 Lsi04g02202 Lsi-Chr4:29060901 4.10E-42 dispersed
Lsi04g00534 Lsi-Chr4:4939731 Lsi08g01446 Lsi-Chr8:22647082 5.59E-07 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
Vvi1g741 . . . . . Bpe10g00832 . Bma15g00192 . Cmo18g00811 . Cma18g00809 . Car18g00740 . Cpe09g00496 Cpe01g01520 . . . . . . . Cla05g02528 Cam05g2718 Cec05g2749 Cco05g2790 Clacu05g2720 Cmu05g2574 Cre05g2688 Cone13ag1031 Cone19ag1022 . . Lsi04g00534 Csa05g02349 Chy10g00916 Cme10g00510 Blo06g00870 . . . . . . . . . . Cma04g01717 . Car04g01749 . . . . . . . . . . . . . . . . . . . . .
       

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
OG0001098 3 1 1 2 2 1 5 2 2 2 1 2 4 2 2 4 2 5 3 2 2 2 2 2 2 2 2 7 5 2 76
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00534 Lsi_Chr04 FPKM 19.66818 21.199385 378.867859 365.030609 2052.202393 2287.442871 2011.019897 141.936844 160.11113 131.999863