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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtcgcttcgccgcggcgattaacctgcggctttcctttactgtttaagctgcatctgaggggaatttcatttttggtatggatgacgactcacagGTGGGCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCC

Basic information

species Oryza sativa
transcript LOC_Os08g41010.7
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g41010.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G107106_T02 (Zea mays), 3'ss of exon 2
gtaggtcgcttcgccgcggcgattaacctgcggctttcc----tttac-tgtttaagctgcatctgaggggaatttc-atttttggt-----atggatgacgactcacagGTGGGCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCC
||||||||||  | | | ||   |||  ||   |||  |      ||| | | ||||||||||||||| ||| || | |||  |||      ||  | |  |  || ||||  | ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||  |||||||| ||||||||
gtaggtcgctctggctccgccgctaagttgtctcttgtcgcaccctacgtatctaagctgcatctgagtggatttcccattggtgggggacaataaacggtg-ttctcagGCAGCCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCAAGAACGTCAACTTCGCCTTCCGCACCACTTGCAACATGCGCAGCTGCAACCAGTCCAGGCC

upper sequence: LOC_Os08g41010.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G134770_T02 (Zea mays), 3'ss of exon 2
gtaggtcgct-tcgccgcggcgattaacc-tgcggctttcctttactgttta--agctgcatctgaggggaatttcatt--tttggtatggatgacgac--tcacagGTGGGCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCC
|||||| ||| | ||  || ||  |     |    || ||| |  || | ||  || |||||||||| | | |  | |     ||| |      ||  |  || ||||  | ||||||||||||||||||||||||||||||||| ||||||| ||||||||||| |||||||| |||||||||||||| |||||||| ||||||||
gtaggttgctcttgctccgccgcctcgttatctcactctccgtatctatctataagttgcatctgagtgaattcccctcggcgtgggacaataaacctccttctcagGCAGCCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCAAGAACGTTAACTTCGCCTTTCGCACCACTTGCAACATGCGCAACTGCAACCAGTCCAGGCC
















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|58673635|gb|CK062321.1|CK062321
EST:     GTGCCCGCACCGACG                         GTGGGCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCCAGAGCGTCAACT
genomic: GTGCCCGCACCGACGgtaggtcgct ... cgactcacagGTGGGCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACT
EST: gi|88724063|gb|CI749073.1|CI749073
EST:     GTCGACAACCGTAGCCAATCTGCTGGAAAGCGTGCCCGCACCGACG                         GTGGGCGGCGTGAGGACGACTGGGTTTGGCCCAGCTGCCAGAACGTCAACT
genomic: GTCGACAACCGTAGCCAATCTGCTGGAAAGCGTGCCCGCACCGACGgtaggtcgct ... cgactcacagGTGGGCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttaagctgcatctgaggggaatttcatttttggtatggatgacgactcacagGTGGGCGGCGTGAGGACGACTGGGTTTGCCCCAGCTGCCAGAACGTCAACTTCGCCTTCCGCACCACCTGCAACATGCGCAATTGCAACCAATCCAGGCC
                      aatttcattttt  TA-rich tract