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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgattcgtttttcacccctatgttttataaagcaatgatatagggagtattaagttagtgctttgctgcatcaaaatatttcagGTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATCAGTGATGCAACAATTGGTGACTTGTGTTCAGTGCACAGCT

Basic information

species Oryza sativa
transcript LOC_Os01g65330.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65330.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G148773_T03 (Zea mays), 3'ss of exon 3
gtttgattcgtttttcacccctatgttttataaag-caatgatataggg------agtattaagttag-tgctttgctgc-atcaaaatatttcagGTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATCAGTGATGCAACAATTGGTGACTTGTGTTCAGTGCACAGCT---------
||    |||  |||  ||||||      |||| || ||| | | |  ||      |  ||||| | ||  |||||  ||| |||||| | ||||||| | |||||||||| ||| ||||| ||||| ||||||||||||||||||||||| |||||  | || ||||||| ||||||||  ||||||         
gtaaagttcactttggacccctgcagcctatagaggcaaaggttttagggtattgaaaattaactcaggcgcttttatgccatcaaactctttcagGCTGGCATCAGAACTGACTCCTCAACATCAATTGAAAGAAGAGGCAGAATCAGTAATGCAGGAGTTCGTGACTTCTGTTCAGTTTACAGCTGTAAGTAAT

upper sequence: LOC_Os01g65330.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G046846_T01 (Zea mays), 3'ss of exon 4
gtttgattcgtttttcacccctatgttttataaag-caatgatataggg------agtattaagttagtgctttgctgc-atcaaaatatttcagGTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATCAGTGATGCAACAATTGGTGACTTGTGTTCAGTGCACAGCT
||   ||||  |||   ||| |      |||| || ||| ||| |  ||      |  ||||| | || |||||  ||| |||||| | |||||||||  ||||||||| ||| ||||| |||||  |||||||||||||||||||||| |||||  |||| ||||||| ||||||||  ||||||
gtaaaattcactttgagcccttgcaacctatagagacaaagattttagggtattaaaaattaactcagcgcttttatgccatcaaactctttcagGTTGACATCAGAACAGACTCCTCAACATCAACTGAAAGAAGAGGCAGAATCAGTAATGCAGGAATTAGTGACTTCTGTTCAGTTTACAGCT

upper sequence: LOC_Os01g65330.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G148773_T02 (Zea mays), 3'ss of exon 3
gtttgattcgtttttcacccctatgttttataaag-caatgatataggg------agtattaagttag-tgctttgctgc-atcaaaatatttcagGTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATCAGTGATGCAACAATTGGTGACTTGTGTTCAGTGCACAGCT
||    |||  |||  ||||||      |||| || ||| | | |  ||      |  ||||| | ||  |||||  ||| |||||| | ||||||| | |||||||||| ||| ||||| ||||| ||||||||||||||||||||||| |||||  | || ||||||| ||||||||  ||||||
gtaaagttcactttggacccctgcagcctatagaggcaaaggttttagggtattgaaaattaactcaggcgcttttatgccatcaaactctttcagGCTGGCATCAGAACTGACTCCTCAACATCAATTGAAAGAAGAGGCAGAATCAGTAATGCAGGAGTTCGTGACTTCTGTTCAGTTTACAGCT

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|33799472|gb|CF325594.1|CF325594
EST:     AACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAA                         GTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATC
genomic: AACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgtttgattcg ... aatatttcagGTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagcaatgatatagggagtattaagttagtgctttgctgcatcaaaatatttcagGTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATCAGTGATGCAACAATTGGTGACTTGTGTTCAGTGCACAGCT
                                        atcaaaatatttca  TA-rich tract