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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgaattgccgttagtagatggttacactttagaagagttaaatgacagcaaccattagtagatgggaaactcattttttttgtgtgttataaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCTGCAATCAGTTCCAAGTTGCAGAGTGTTAAGCATGTTATCTATATTGAGG

Basic information

species Oryza sativa
transcript LOC_Os05g25310.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g25310.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G079236_T01 (Zea mays), 3'ss of exon 4
---ctgaattgccgttagtagatggttacactttagaagagttaaatgacagcaaccatt-agtagatgggaaactcattttttttgtgtgttataaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCTGCAATCAGTTCCAAGTTGCAGAGTGTTAAGCATGTTATCTATATTGAGG
    | |   ||  ||  |   ||   |    || || ||||| || ||  ||| | ||| | | | |   | |       |  |  | ||||   ||||||||||||||||||||||||||||||||||||| ||||||||||||||  ||||||||||||| || || ||||||||| ||| |||| |||||||||||||||
ctgtttataagcgcttgatgtctgtcgaagtattggaggagtttaacga--gcagcgattcatttggtcacacatcttaaatactcttctgttg--aatttcagACACAGGTTTCAACTCTGATATGTGATTCGAAGCAACTTAAGAAAATACCTGCAATCAGCTCTAAATTGCAGAGTCTTAGGCATATTATCTATATTGAGG

upper sequence: LOC_Os05g25310.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G339336_T01 (Zea mays), 3'ss of exon 3
ctgaattgccgttagtagatggttacactttagaagagttaaatga-cagcaaccattagtagatg-ggaaactcattttttttgtgtgtta--taaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCTGCAATCAGTTCCAAGTTGCAGAGTGTTAAGCATGTTATCTATATTGAGG
    |||  ||     |  || | |     | || ||  | ||||| ||   | ||  | |  ||  ||  || ||| ||   |     ||   | ||||||||||||||||||||||||||||||||||||| ||||||||||||||| ||||||||||||| |  || ||||||||| ||| || | |||||||||||||||
---tatt-tcgagtccaagtgttgaagtactggaggaactcaatgagcactgagcagcaattcatttggtcacacatcttaaatactcctttgttgaatttcagACACAGGTTTCAACTCTGATATGTGATTCGAAGCAACTTAAGAAGATACCTGCAATCAGCTATAAATTGCAGAGTCTTAGGCGTATTATCTATATTGAGG
















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|58672298|gb|CK060984.1|CK060984
EST:     CTATCTATGCATCTCTTGGCGAGGATGCACTGGTGCATTCACTGAATGAG                         ACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCT
genomic: CTATCTATGCATCTCTTGGCGAGGATGCACTGGTGCATTCACTGAATGAGgtacaaccca ... taaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCT
EST: gi|4714242|gb|AU058209.1|AU058209
EST:     CTATCTATGCATCTCTTGGCGAGGATGCACTGGTGCATTCACTGAATGAG                         ACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCT
genomic: CTATCTATGCATCTCTTGGCGAGGATGCACTGGTGCATTCACTGAATGAGgtacaaccca ... taaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCT
EST: gi|3763367|gb|AU030119.1|AU030119
EST:     CTATCTATNCATCTCTTGGCGAGGATGCACTGGTGCATTCNCTGAATGAG                         ACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTNCCT
genomic: CTATCTATGCATCTCTTGGCGAGGATGCACTGGTGCATTCACTGAATGAGgtacaaccca ... taaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCT
EST: gi|33794084|gb|CF322932.1|CF322932
EST:     CTATCTATGCATCTCTTGGCGAGGATGCACTGGTGCATTCACTGAATGAG                         ACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCT
genomic: CTATCTATGCATCTCTTGGCGAGGATGCACTGGTGCATTCACTGAATGAGgtacaaccca ... taaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagcaaccattagtagatgggaaactcattttttttgtgtgttataaatttcagACACAGGTTTCAACTCTGATATGTGATTCAAAGCAACTTAAGAAGCTACCTGCAATCAGTTCCAAGTTGCAGAGTGTTAAGCATGTTATCTATATTGAGG
                            attttttttgtgtgtt  TA-rich tract