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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAAGGGGATGAATTACCTTCACAAGCGCAATCCTCCTATAGTCCACCGGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatccttttacccattttgccatattttaagacctgtttgatttcacattactctttgtggtactttttgttattttttctactttgtttttggaca...

Basic information

species Oryza sativa
transcript LOC_Os02g32610.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g32610.4 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G059671_T04 (Zea mays), 5'ss of exon 11
GCTAAGGGGATGAATTACCTTCACAAGCGCAATCCTCCTATAGTCCACCGGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatccttt----tacccattttgccatattttaagacctgtttgatttcacattactctttgtggtactttttgttattttttctactttgtttttggaca
|| || |||||||| || ||||| ||||| |||||||| ||||||||||||||||| ||||||||||| ||||||||||| ||||||||||||||||| ||||    |||    ||    |||| |  |  ||    |   | |||  ||||  | |||    |   |     |  | |  |||   ||||| |  ||     
GCAAAAGGGATGAACTATCTTCATAAGCGTAATCCTCCAATAGTCCACCGGGATCTTAAGTCACCAAACCTGTTGGTTGACAAAAAGTACACTGTGAAAgtatgaaatttccgatattgcttttactttcattaggaaaaagcttgccttca-gtgacttaacgatatcacagtattaaaatttataactttatgattca---

upper sequence: LOC_Os02g32610.4 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA03G34890.1 (Glycine max), 5'ss of exon 12
GCTAAGGGGATGAATTACCTTCACAAGCGCAATCCTCCTATAGTCCACCGGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatccttttacccattttgccatattttaagacctgtttgatttcacattactctttgtggtactttttgttatttt-ttctactttgtttttggaca-----
||||||||||||||||| ||||| || ||||||||||| || || ||  | ||||| || || ||||| ||  | ||||| || || || || |||||||||             |||||  ||| | | || |  ||||   |||||  ||| ||  |  |  || ||| ||  | || ||| ||||   |      ||     
GCTAAGGGGATGAATTATCTTCATAAACGCAATCCTCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgga-----attttctcatgtctgaaaaattgttgagtttcat-ttaatccgtaagtcacctttcgtagtattgttccacttctctggcactcacaaat

upper sequence: LOC_Os02g32610.4 (Oryza sativa), 5'ss of exon 12
lower sequence: AT5G03730.1 (Arabidopsis thaliana), 5'ss of exon 11
GCTAAGGGGATGAATTACCTTCACAAGCGCAATCCTCCTATAGTCCACCGGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatccttttaccc-attttgccatattttaagacctg--tttgatttcacattactctt-tgtggtactttttgttattttttctactttgtttttggaca
|||||||| |||||||| |||||||| ||||||||||| || || ||  | |||||||| || |||||  | |||||||| ||||| || || || ||||| |     |  |    |  |||   | |   | |   ||  |||||| |   ||| ||||| || |  |   ||   |||   || |  ||| |  ||     
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaaattgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataaattatgatttttaattc----

upper sequence: LOC_Os02g32610.4 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv08s0007g03910.t01 (Vitis vinifera), 5'ss of exon 11
GCTAAGGGGATGAATTACCTTCACAAGCGCAATCCTCCTATAGTCCACCGGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatccttttacccattttgccatattttaagacctgtttgatttcaca-ttactctttgtggtacttt--ttgttattttttctactttgtttttggaca
|| ||||| |||||||| ||||| || ||||||||||| || || || || ||| | ||||| ||||| || |||||||| ||||| ||||| |||||||||       |     || |||   |      | |   || |  ||  | | | | | ||   |  || ||  || |  |   ||  ||||| | ||| ||  
GCCAAGGGCATGAATTATCTTCATAAACGCAATCCTCCCATTGTTCATCGAGATTTGAAGTCTCCAAACCTTTTGGTTGACAAAAAATACACCGTGAAGgtaaga---gtggaatatcttgagcttgcaagatagacgtctacttcgataatcaatgttctagccaccttagttttgctgccttgcactttttgttttgatt

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|29680443|gb|CB676718.1|CB676718
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29660723|gb|CB656998.1|CB656998
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29639477|gb|CB644486.1|CB644486
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29625152|gb|CB630163.1|CB630163
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTGCACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29678550|gb|CB674825.1|CB674825
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|88585426|gb|CI703056.1|CI703056
EST:     GGGATCTAAAGTCACCAAATCTGTCGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATCTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29662085|gb|CB658360.1|CB658360
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29680716|gb|CB676991.1|CB676991
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29665413|gb|CB661688.1|CB661688
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29664340|gb|CB660615.1|CB660615
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|33675051|gb|CF303290.1|CF303290
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29630303|gb|CB635312.1|CB635312
EST:     TGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: TGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29664339|gb|CB660614.1|CB660614
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCT
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCT
EST: gi|29675290|gb|CB671565.1|CB671565
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29672353|gb|CB668628.1|CB668628
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|29628356|gb|CB633367.1|CB633367
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
EST: gi|58595275|gb|CF993583.1|CF993583
EST:     GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAG                         GTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC
genomic: GGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatcctt ... aatgctgcagGTCTGTGACTTTGGTCTCTCCAGATTGAAGGCAAACACATTTTTGTCTTCC