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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagactataaaacatgtagttttgtgaaatttactctaaacataatcactgattccatctcttaattcgtctttcctttttgtttttcatgggaagcagGCAAGTTTTTCACAGAGTTGTCACAGAATTTTGGTGACATTAGGAGACTGCTATTGTAAATGAAAGTTAGTACTAATCGTGCTTTCAAATATTCTGTTGG

Basic information

species Oryza sativa
transcript LOC_Os06g30460.3
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g30460.4 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G082664_T01 (Zea mays), 3'ss of exon 19
---------ttagactataaaacatgtagt-tttgtgaaatttactctaaacataatcactgattccatctcttaattcgtctttcctttttgtttttcatggg---aagcagGCAAGTTTTTCACAGAGTTGTCACAGAATTTTGGTGACATTAGGAGACTGCTATTGTAAATGAAAGTTAGTACTAATCGTGCTTTCAAATATTCTGTTGG
         |       |      | | || ||| |   |||  || | |   |   |  |     ||    ||| |   || |   || |||   |  |||||    |||||||||||||||||| ||| || | | ||||||  | ||||| ||||| |||||||||||||||||||   | | | | |||| ||| |  |||||| | ||
gtgtgcatctcttttcttgctttgttttgtctttatatcattcccttttagtgtgtactatttcatcacaatttagtcactcctcttttcttgcactgtatgggcgggagcagGCAAGTTTTTCACGGAGCTGGCGCTGAATTTCAGCGACATCAGGAGGCTGCTATTGTAAATGAAAGGAGGCAATTACCGTGTTTTGACGTATTCTTTGGG
















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|88849307|gb|CI087829.1|CI087829
EST:     GAGCTTGACATTGTCCGCTGACCATCGTGTATTTGATGGTCAAGTAGGAG                         GCAAGTTTTTCACAGAGTTGTCACAGAATTTTGGTGACATTAGGAGACTGC
genomic: GAGCTTGACATTGTCCGCTGACCATCGTGTATTTGATGGTCAAGTAGGAGgtactgatat ... tgggaagcagGCAAGTTTTTCACAGAGTTGTCACAGAATTTTGGTGACATTAGGAGACTGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcactgattccatctcttaattcgtctttcctttttgtttttcatgggaagcagGCAAGTTTTTCACAGAGTTGTCACAGAATTTTGGTGACATTAGGAGACTGCTATTGTAAATGAAAGTTAGTACTAATCGTGCTTTCAAATATTCTGTTGG
               tcttaat  putative branch site (score: 3)
                     ttcgtctttccttttt  CT-rich tract
                                tttttgtttttcat  TA-rich tract