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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatacaatttacacgtgtgattttgtagtgtgtgaattagccttcatttcatatgcttggtggctccttattggtattgtgcagAAATCAGAAGGCTCTTTGTTTCTTAGTGATCTGAAGCAAAAGTTATTGCTGCCACAAAATGAAACTAGTGTTGCCGGGACACGCTACAATGTTCCTCTCA

Basic information

species Oryza sativa
transcript LOC_Os03g01240.1
intron # 38
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01240.1 (Oryza sativa), 3'ss of exon 38
lower sequence: GRMZM5G862538_T01 (Zea mays), 3'ss of exon 7
gtgatacaatttacacgt----gtgattttgtagtgtgtgaattagccttcat---ttcatatgcttggtggctccttattggtattgtgcagAAATCAGAAGGCTCTTTGTTTCTTAGTGATCTGAAGCAAAAGTTATTGCTGCCACAAAATGAAACTAGTGTTGCCGGGACACGCTACAATGTTCCTCTCA
|| | | | ||| |  ||    ||  ||||      | || | |    |||||    | |||||| || ||   ||   |||||||    ||||   | ||||||||||  ||||| ||||  ||||||||||| ||  ||||||| || |||||| |   |||||| ||||||||||||||||| ||||| |
gtcaaatatttttcttgttcttgtcctttttataattttggactgctattcatgggctgatatgcatgctgttcccactttggtatctcacagAGGCCGGAAGGCTCTTCCTTTCTAAGTGTCCTGAAGCAAAATTTGCTGCTGCCTCAGAATGAAGCAGCTGTTGCTGGGACACGCTACAATGTGCCTCTGA

upper sequence: LOC_Os03g01240.1 (Oryza sativa), 3'ss of exon 38
lower sequence: GRMZM2G065130_T01 (Zea mays), 3'ss of exon 10
gtgatacaatttacacgtgtgattttgtagtgtgtgaattagccttcat-ttcatatgct---------tggtggctccttattggtattgtgcagAAATCAGAAGGCTCTTTGTTTCTTAGTGATCTGAAGCAAAAGTTATTGCTGCCACAAAATGAAACTAGTGTTGCCGGGACACGCTACAATGTTCCTCTCA
|| | | |||||     ||| ||| |    ||| |||||| |  ||  | |||||  |||         || ||    |   |||||||    ||||   | ||||||||||  ||| | ||||| ||||| ||||| ||  ||||||| || |||||| | |||||||| |||||||||||||| || ||||| |
gtcaaataatttttctttgttattatcctttgtatgaatttggattgctattcatgggctgataatgtatgctgttctcgctttggtatgacacagAGGCCGGAAGGCTCTTCCTTTTTAAGTGACCTGAACCAAAAATTGCTGCTGCCTCAGAATGAAGCAAGTGTTGCTGGGACACGCTACAACGTGCCTCTGA
















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|163927762|gb|EG712498.1|EG712498
EST:     GTGCTCTGAAATCAAAGCTGATGAAGACTGAGGTTGATGAGTACTTCAAG                         AAATCAGAAGGCTCTTTGTTTCTTAGTGATCTGAAGCAAAAGTTATTGCTG
genomic: GTGCTCTGAAATCAAAGCTGATGAAGACTGAGGTTGATGAGTACTTCAAGgtgatacaat ... tattgtgcagAAATCAGAAGGCTCTTTGTTTCTTAGTGATCTGAAGCAAAAGTTATTGCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgaattagccttcatttcatatgcttggtggctccttattggtattgtgcagAAATCAGAAGGCTCTTTGTTTCTTAGTGATCTGAAGCAAAAGTTATTGCTGCCACAAAATGAAACTAGTGTTGCCGGGACACGCTACAATGTTCCTCTCA
                atttcatat  TA-rich tract