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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggacggtggtggttgaaaagttgtgggctatgaagggcactatttgcatatgcctgcatttatgatttttgggctgatctcataatgttcaccctgcagGTTGTTTCCTGTCCTTGTGCACTCGGATTAGCTACCCCTACAGCTATTTTGATAGGAACTTCACTGG

Basic information

species Oryza sativa
transcript LOC_Os03g08070.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g08070.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM5G855347_T02 (Zea mays), 3'ss of exon 4
tggacggtggtggttg-aaaagttgtgggcta--tgaagggcactatttgcatatgcctgcatttatgattt--ttgggctgatctcataatgttcac-cctgcagGTTGTTTCCTGTCCTTGTGCACTCGGATTAGCTACCCCTACAGCTATTTTGATAGGAACTTCACTGG
       | |    || ||||  ||    ||   | ||  || || || ||| |  |  |  |  |   |||  || | || ||    | |  || || |||||||||||||||||||||||||||||| ||||||||||| ||||||||||| || ||||||||||| || |
-----aattgcacatgcaaaacctgaaatctcattcaaaagctct-ttcgcaaaaccacgtttgaagcgtttattttgactaattctgtgaactttactcctgcagGTTGTTTCCTGTCCTTGTGCACTTGGATTAGCTACACCTACAGCTATCTTAATAGGAACTTCCCTAG
















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|29622946|gb|CB627957.1|CB627957
EST:     CAGACGGGGATTCATTACTATTGAGCTTGAAGCTCGCTGTGGATGTACTT                         GTTGTTTCCTGTCCTTGTGCACTCGGATTAGCTACCCCTACAGCTATTTTG
genomic: CAGACGGGGATTCATTACTATTGAGCTTGAAGCTCGCTGTGGATGTACTTgtaagtagtc ... caccctgcagGTTGTTTCCTGTCCTTGTGCACTCGGATTAGCTACCCCTACAGCTATTTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatatgcctgcatttatgatttttgggctgatctcataatgttcaccctgcagGTTGTTTCCTGTCCTTGTGCACTCGGATTAGCTACCCCTACAGCTATTTTGATAGGAACTTCACTGG
                           ggctgat  putative branch site (score: 4)
                                           ttcaccct  putative PPT
             atttatgattttt  TA-rich tract