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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAAGATCCCTTCCATCCATGGGTACGCAATGGGCTTGAAGCTTGAACAGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAGgttcaacttctcagtcgcctatgctcttataacattctagatgtcatgctgtgtctttttgttatgattttgagaaactcatcggtatacatatctgaaaattcag

Basic information

species Oryza sativa
transcript LOC_Os04g52370.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G044629_T02 (Zea mays), 5'ss of exon 12
GAAGAAGATCCCTTCCATCCATGGGTACGCAATGGGCTTGAAGCTTGAACAGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAGgttcaacttctcagtcgcctatgctcttataacattctagatgtcatgctgtgtctttttgttatgattttgagaaactcatcggtatacatatctgaaaattcag
|||||||||||||||||||||||||| | | | |||| ||||||||||||||| |||||||||||| ||||  |||||||| ||||| |||||||| |||||   | ||   |     | ||   || | |   || |     || |  |||   |  |  | | ||    | |||||  |      |                  
GAAGAAGATCCCTTCCATCCATGGGTTCACGACGGGCCTGAAGCTTGAACAGTTTATATTCGACGCCTTCACATACTCCCCGTCCACGGCACTTTTCGAGgtcagaatttctatctaaccataggctcaca-tgtttt---cttcttcttgt---tcctcatcaagagcaggggaaacaaaaaaacttcag---------------

upper sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G019986_T04 (Zea mays), 5'ss of exon 13
GAAGAAGATCCCTTCCATCCATGGGTACGCAATGGGCTTGAAGCTTGAACAGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAGgttcaacttctcagtcgcctatgctcttataacattctagatgtcatgctgtgtctttttgttatgattttgagaaactcatcggtatacatatctgaaaattcag
|||||||||||||||||||||||||| | ||| |||| ||||||| ||||||| |||||||||||| |||| |||||||||||||||||  ||||| |||||   | |  | |            | ||||  |   |||    | | |||| |  |||| || |  ||||  |   ||||||| |     | |    ||||||||
GAAGAAGATCCCTTCCATCCATGGGTTCACAACGGGCCTGAAGCTGGAACAGTTTATATTCGACGCCTTCACTTACTCCCCATCCACAGAGCTTTTCGAGgtcagaatcttta------------cctatataaacatagtccacgtactgtcttgtttttttttatttttttgtctctcatcgtttcttttctgctgaaattcag
















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|3768106|gb|AU032133.1|AU032133
EST:     AGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAG                         GTTTTGCGGGAGGAGGAATTTGCGCCTGTAAAGAATGCGAATGGCGCGTCT
genomic: AGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAGgttcaacttc ... gaaaattcagGTTTTGCGGGAGGAGGAATTTGCGCCTGTAAAGAATGCGAATGGCGCGTCT
EST: gi|88961150|gb|CI096554.1|CI096554
EST:     AGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAG                         GTTTTGCGGGAGGAGGAATTTGCGCCTGTAAAGAATGCGAATGGCGCGTCT
genomic: AGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAGgttcaacttc ... gaaaattcagGTTTTGCGGGAGGAGGAATTTGCGCCTGTAAAGAATGCGAATGGCGCGTCT
EST: gi|86831371|gb|CI297640.1|CI297640
EST:     AGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAG                         GTTTTGCGGGAGGAGGAATTTGCGCCTGTAAAGAATGCGAATGGCGCGTCT
genomic: AGTATATATTCGACGCGTTCAGTTACTCCCCATCCACAGCACTTTTTGAGgttcaacttc ... gaaaattcagGTTTTGCGGGAGGAGGAATTTGCGCCTGTAAAGAATGCGAATGGCGCGTCT