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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtttttacccgtttctcagaaatagtttgggtacatctggtcatattctgaagagaaaattgaatttcagGAGGTATTTTGGGCACAAGAGGACCATAAGGCCCAATGCCAAGAAGCTTTACTCACTCTTTCTCAATCGAACCAGCATGAGTTGGGAAACATTTTCGTCC

Basic information

species Oryza sativa
transcript LOC_Os04g47520.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g47520.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G142664_T01 (Zea mays), 3'ss of exon 9
---------------------------------------gtaatgtttttacccgtttctcagaaatagtttgggtacatctgg-tcatattctgaagaga---------------aaatt---gaatttcagGAGGTATTTTGGGCACAAGAGGACCATAAGGCCCAATGCCAAGAAGCTTTACTCACTCTTTCTCAATCGAACCAGCATGAGTTGGGAAACATTTTCGTCC
                                       |    | |   |   | ||     || ||| || |||  |||||  | | | ||| | |  |               |||||   || ||||||||| ||||||||||||| ||||||||||||||||||  | ||||| ||||||||| | ||||| ||||| ||||||||||||||||| |||||| | || 
gtactcttttctttctgtttttcctttagtgctaacctagactcggtggcaattgattgaacaaagtagatttggtttatctgtcttacactctaaggcaatggtgattgactgataaattttggattttcagGAGATATTTTGGGCACAGGAGGACCATAAGGCCCAACACTAAGAAACTTTACTCATTATTTCTGAATCGGACCAGCATGAGTTGGGACACATTTGCATCT
















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|86528484|gb|CI168690.1|CI168690
EST:     TTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAG                         GAGGTATTTTGGGCACAAGAGGACCATAAGGCCCAATTGCCAAGAAGCTTT
genomic: TTTGTGACAAATAACAACGGCAACATGGCCAGAATGTTGGCTGGTCGAAGgtaatgtttt ... tgaatttcagGAGGTATTTTGGGCACAAGAGGACCATAAGGCCCAA-TGCCAAGAAGCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagaaatagtttgggtacatctggtcatattctgaagagaaaattgaatttcagGAGGTATTTTGGGCACAAGAGGACCATAAGGCCCAATGCCAAGAAGCTTTACTCACTCTTTCTCAATCGAACCAGCATGAGTTGGGAAACATTTTCGTCC
                                      agaaaattgaattt  TA-rich tract