Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi01g00530 ATGTTGGGAAGCGGGGGGGTTTCGGATGGGTACGAAGTCGGCTCAAAAAGACAAAGAATGATGGAACCGAATCCCTACTTCGCAGTTAGCAGCAGCACTGCTGGATTTCAACCTTACGGCTATGGGAGTTTTCCACCTACTCATGCCTTTCCTGTGGTTCGCCTTAGAGGACTTCCCTTCAACTGCACTGACATTGACATTTTCAAGTTCTTTGCTGGACTGGACATTGTGGATGTGCTGCTCGTCAACAAGAATGGGCGGTTCATGGGAGAGGCCTTTGTTGTCTTTGCTGGCTCTGTGCAGGTTGAGTTTGCATTGCAACGGGATCGACAGAATATGGGGCGTAGGTATGTAGAAGTCTTCAGGTGCAAAAGGCAGGATTATTATAATGCTGTTGCTTCTGAAGTAAATTATGAGGGCATTTATGATAATGACTACCATGGAAGCCCTCCTCCTCGACAAAAAAGGTTCAGCGACAAGGATCAGATGGAATACACTGAGATACTGAAGCTTCGTGGTCTCCCCTTTTCTGTGACAAAATCCAACATCATTGAATTTTTCGGGGAGTTCGATCTGGCAGAAGATAGGATACATATTGCAAGTCGTCCAGATGGGAAGGCTACCGGAGAGGCTTACGTGGAGTTTGCTTCAGCAGAGGAGGCGAAGAGAGCGATGAGCAAGGACAAGATGACAATTGGATCGAGATATGTGGAGTTGTTTCCTTCAACCCCAAATGAAGCAAGAAGAGCTGAGTCAAGGTCAAGACAGTAA 771 46.95 MLGSGGVSDGYEVGSKRQRMMEPNPYFAVSSSTAGFQPYGYGSFPPTHAFPVVRLRGLPFNCTDIDIFKFFAGLDIVDVLLVNKNGRFMGEAFVVFAGSVQVEFALQRDRQNMGRRYVEVFRCKRQDYYNAVASEVNYEGIYDNDYHGSPPPRQKRFSDKDQMEYTEILKLRGLPFSVTKSNIIEFFGEFDLAEDRIHIASRPDGKATGEAYVEFASAEEAKRAMSKDKMTIGSRYVELFPSTPNEARRAESRSRQ 256
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 4343875 4344645 - Lsi01G005300.1 Lsi01g00530 653188

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi01g00530 256 SUPERFAMILY RNA-binding domain, RBD 166 253 IPR035979 GO:0003676
Lsi01g00530 256 CDD RRM_hnRNPH_ESRPs_RBM12_like 168 240 - -
Lsi01g00530 256 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 171 237 IPR000504 GO:0003723
Lsi01g00530 256 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 54 116 IPR000504 GO:0003723
Lsi01g00530 256 Gene3D - 49 134 IPR012677 -
Lsi01g00530 256 PANTHER HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN-RELATED 3 256 - -
Lsi01g00530 256 PANTHER RNA-BINDING (RRM/RBD/RNP MOTIFS) FAMILY PROTEIN 3 256 - -
Lsi01g00530 256 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 167 244 IPR000504 GO:0003723
Lsi01g00530 256 Gene3D - 152 256 IPR012677 -
Lsi01g00530 256 SUPERFAMILY RNA-binding domain, RBD 45 130 IPR035979 GO:0003676
Lsi01g00530 256 SMART rrm1_1 168 240 IPR000504 GO:0003723
Lsi01g00530 256 SMART rrm1_1 52 121 IPR000504 GO:0003723
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi01g00530 K12898 HNRNPF_H; heterogeneous nuclear ribonucleoprotein F/H - csv:101213884 518.464
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi01g00530 Lsi-Chr1:4343875 Lsi10g01065 Lsi-Chr10:14886656 1.07E-83 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
Vvi4g1192 . . . . . . . Bma15g00888 . . Cma03g00623 Cma07g00385 Car03g00578 Car07g00337 . Cpe19g00897 Cpe10g00714 . . . . . . . . . . . . . . . Cone12ag0866 . . Lsi01g00530 . . . . Blo06g00274 . . Bpe10g00194 . . . . . Cmo07g00378 . . . . . . . . . . . . . . . . . . . . . . Chy02g00506 .
       

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
OG0005883 2 2 1 1 2 1 2 1 1 1 0 1 2 1 1 1 1 2 2 1 1 1 1 1 1 1 1 4 1 1 39
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi01g00530 Lsi_Chr01 FPKM 2.084066 1.455034 0.0 0.0 1.576989 1.29614 1.194144 0.151781 0.588808 0.371778