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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagcattcctattcatctttcttctatattgcaaatttcaataaacatgatgggtgcactgttatttttcagGTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTACAATTCCAGACCCTTCGAGTGATGTTCGTTTCACTCTATCTAGTGAAAG

Basic information

species Oryza sativa
transcript LOC_Os03g22420.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G042074_T02 (Zea mays), 3'ss of exon 13
gtgagtagcattcctattcatctttcttctatattgcaaatttcaataaacatgatgggtgcactgttatttttcagGTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTACAATTCCAGACCC---TTCGAGTGATGTTCGTTTCACTCTATCTAGTGAAAG
||||||  ||||| ||| ||| ||  |   | ||   |   ||     |   | || | | || ||||||||| ||||||||||||||||| |||||||||||||||| |||||||||||| ||| ||||| |||||||||   || |||| |||| |  ||   |||||| || ||   
gtgagtgccattcatatccattttaatgtaagatcata---tttgcccagtgtcattgatacattgttatttt-cagGTATTGATAAAATAATTGGTTTTGCTTTGAGCCATCAACTTAAGAACTGTACAAATCCAGACCCCCCTTTGAGTAATGTGCAGTTTGTTCTATCCAGCGA---
















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|58688470|gb|CK077157.1|CK077157
EST:     TCCTAACAAACGAAT                         GTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTA
genomic: TCCTAACAAACGAATgtgagtagca ... tatttttcagGTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTA
EST: gi|58605943|gb|CK033976.1|CK033976
EST:     CAGTGATCTTGAAACAGTATGTGTTAAGGATCGTCTCCTAACAAACGAAT                         GTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTA
genomic: CAGTGATCTTGAAACAGTATGTGTTAAGGATCGTCTCCTAACAAACGAATgtgagtagca ... tatttttcagGTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTA
EST: gi|29635827|gb|CB640836.1|CB640836
EST:     GAAACAGTATGTGTTAAGGATCGTCTCCTAACAAACGAAT                         GTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTA
genomic: GAAACAGTATGTGTTAAGGATCGTCTCCTAACAAACGAATgtgagtagca ... tatttttcagGTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttctatattgcaaatttcaataaacatgatgggtgcactgttatttttcagGTATTGATAAAATAGTTGGTTTTGCTTTGAGTCATCAACTTAAGCACTCTACAATTCCAGACCCTTCGAGTGATGTTCGTTTCACTCTATCTAGTGAAAG
                                            ttatttttc  CT-rich tract
       tatattgcaaatttca  TA-rich tract