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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatggagaaagaatgccaatgtcatttttattagccaaaatttcaagctattgattacggttctatccaccatgattaatggcgaattgactaattgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG

Basic information

species Oryza sativa
transcript LOC_Os02g56850.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g56850.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM5G806449_T01 (Zea mays), 3'ss of exon 7
tatggagaaagaatgccaatgtcatttttattagccaaaatttcaa-gctattgattacggttctatccaccatgatta----atggcgaattgactaa-ttgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG
      ||  | |||  | | |||  ||||  | |   ||  |    |||||   | | |     |   |  |||   |    ||    ||   ||| | |||||||||||| ||||||||||||||  |  |||||||||| ||||||||||||||||||||||  || ||||||||||||||||| ||||||
------gattgtatgatactttcaagtttagaaacaggaagcttgttgctatgattgatgtggacaggaaatatgggcataccattattaacaaactcacttgcagAGGTTTTGATGATGAGATGAGAGCTATTGTTGCAAGCAACCTTGAGGGAAGGGGAATCAAGTTGCATCCAGGGACAAATCTCTCTGAG
















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|58692171|gb|CK080858.1|CK080858
EST:     GTTTTATCGAAAAGAGCTTCCTCTAAG                         AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
genomic: GTTTTATCGAAAAGAGCTTCCTCTAAGgtatttatta ... ctaattgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
EST: gi|27578226|gb|CB000921.1|CB000921
EST:     AAGAGCTTCCTCTAAG                         AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
genomic: AAGAGCTTCCTCTAAGgtatttatta ... ctaattgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
EST: gi|58601900|gb|CK012428.1|CK012428
EST:     GGGATGGGTGCGCACGTAGACTTGTTTTATCGAAAAGAGCTTCCTCTAAG                         AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
genomic: GGGATGGGTGCGCACGTAGACTTGTTTTATCGAAAAGAGCTTCCTCTAAGgtatttatta ... ctaattgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
EST: gi|319908658|gb|HS977786.1|HS977786
EST:     GGGATGGGTGCGCACGTAGACTTGTTTTATCGAAAAGAGCTTCCTCTAAG                         AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
genomic: GGGATGGGTGCGCACGTAGACTTGTTTTATCGAAAAGAGCTTCCTCTAAGgtatttatta ... ctaattgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
EST: gi|4714976|gb|AU056093.1|AU056093
EST:     GGGATGGGTGCGCACGTAGACTTGTTTTATCGAAAAGAGCTTCCTCTAAG                         AGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG
genomic: GGGATGGGTGCGCACGTAGACTTGTTTTATCGAAAAGAGCTTCCTCTAAGgtatttatta ... ctaattgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctattgattacggttctatccaccatgattaatggcgaattgactaattgcagAGGTTTCGATGATGAGATGAGGACGGTTGTTGCAAGTAACCTTGAGGGAAGGGGAATCAGATTACATCCAGGGACAAATCTATCTGAG
                                           gactaat  putative branch site (score: 2)
                          atgattaat  TA-rich tract