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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAAgtaagattagatatatcctccatttcttcttctgtagttgatacattttcttctatctttttgtgtcatcattctttagtttccattcccgtacagcttctagggccataaggccattacttactggcaccttccattttgtcag

Basic information

species Oryza sativa
transcript LOC_Os02g03410.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g03410.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G053868_T02 (Zea mays), 5'ss of exon 3
ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAAgtaagattagatatatcctccatttcttc---ttctgtagttgatacattttc-------ttctatctttttgtgtcatca--------ttcttta----gtttccattccc-gtacagcttctag--ggccat---aaggccattacttactggcaccttccattttgtcag
 ||||||||||| ||||||||||| || |||||||||||||||||||  ||||||    | |||| ||||    | | |||  | || | |   |       || ||  ||||||||   | |        | |||||    ||||   | |   ||     ||||||  |  | |   |   || ||||||| |||         ||||| |||
GCTATGTGAGGGCGGTGAACTATTAGATCGGATTTTGGCAAAgtaag--tagataagatccccatctctttgtttcccgtacctcattcttcgccattaaatttatagatttttgtgctgtaaaatcagattgctttatgttgtttgtctgctttgtttgatttctagttgctcgttcaagatcctttacttaatggtgtgcgt-gttttgacag

upper sequence: LOC_Os02g03410.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 5'ss of exon 3
ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAAgtaagattagatatatcctccatttcttctt-ctgtagttg-------atacattttcttctatctttttgtgtcatcattctttagtttccattcccgtacagcttctagggccataaggccattacttactggcaccttccattttgtcag
  ||||||||||||||||| | ||||| ||||| ||||| |||||||| |    |  || |  || |  | ||  |||   ||       ||  ||| |||    |   | | || |  |||  ||  |  |  |||    |                                                     
GTTATGTGAGGGTGGTGAATTGTTGGATCGGATATTGGCCAAgtaagaatcttcaactcttggatataattttattgttcctggggtaaaatggattctctgtggtgcatctttggccacatctttgtggctaaattttgat-----------------------------------------------------
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|29641793|gb|CB646800.1|CB646800
EST:     ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAA                         AAAGAACAGCCGTTATAGTGAGAAAGATGCTGCAGTGGTGGTGCGGCAGAT
genomic: ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAAgtaagattag ... attttgtcagAAAGAACAGCCGTTATAGTGAGAAAGATGCTGCAGTGGTGGTGCGGCAGAT
EST: gi|29644214|gb|CB649221.1|CB649221
EST:     ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAA                         AAAGAACAGCCGTTATAGTGAGAAAGATGCTGCAGTGGTGGTGCGGCAGAT
genomic: ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAAgtaagattag ... attttgtcagAAAGAACAGCCGTTATAGTGAGAAAGATGCTGCAGTGGTGGTGCGGCAGAT
EST: gi|218492077|gb|FG943382.1|FG943382
EST:     ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAA                         AAAGAACAGCCGTTATAGTGAGAAAGATGCTGC
genomic: ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAAgtaagattag ... attttgtcagAAAGAACAGCCGTTATAGTGAGAAAGATGCTGC
EST: gi|29657420|gb|CB653695.1|CB653695
EST:     ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAA                         AAAGAACAGCCGTTATAGTGAGAAAGATGCTGCAGTGGTGGTGCGGCAGAT
genomic: ACTATGTGAGGGTGGTGAACTATTGGACCGGATTTTGGCAAAgtaagattag ... attttgtcagAAAGAACAGCCGTTATAGTGAGAAAGATGCTGCAGTGGTGGTGCGGCAGAT