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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGATGCTCGTGGGGTGGGGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatcactcacgctctacttttctgcctaagctagcttcatctgttttttcttttctgaatttaactgatgatggtgtgagtttaatcag

Basic information

species Oryza sativa
transcript LOC_Os03g09250.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G004528_T03 (Zea mays), 5'ss of exon 2
GGTGATGCTCGTGGGGTGGGGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatca------ctcacgct-ctacttttctgcctaagctagc-------ttcatctgttttttcttttctgaatttaactga----------tgatggtgtgagtttaatcag
||| ||||| ||||||||||| ||||||||||| || |||||||||||||||||||| |||||||||||||||||| | |      | |    | ||||   |         | ||        ||||||| |||    ||   ||   ||||  ||          || |||||   ||    ||||
GGTCATGCTTGTGGGGTGGGGAGGCAACAACGGGTCCACGCTGACGGCTGGGGTCATTGCCAACAGGGAgtaagtgcttaatttgtcccgtattgctacccattcatgcggacgagtattctcgttcatctttttcccattccatggccttaatcgaaacctgaatctgttggtggttgtcgtttcag

upper sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G155242_T01 (Zea mays), 5'ss of exon 2
GGTGATGCTCGTGGGGTGGGGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatcactcacgctctacttttctgcctaagctagcttcatctgttttttcttttctga-atttaactga-tgatggtgtgagtttaatcag
||||||||| ||||||||||| ||||||||||| || |||||||||||||||||||| ||||||||||||| |||  | ||| |   | | || |  ||| |    | | ||  || ||| ||  |   || | |   |||||| |  || |||  |||   ||||
GGTGATGCTTGTGGGGTGGGGAGGCAACAACGGGTCCACGCTGACGGCTGGGGTCATTGCCAACAGGGAgtgagtagt-acttaatttgtcctatattgctttccgttgttt--tcagttattaatggcctaacagagaactgaattttgttgttggttgtttcag

upper sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S267_10V6.1 (Physcomitrella patens), 5'ss of exon 2
GGTGATGCTCGTGGGGTGGGGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagt----gatcactcacgctctacttttctgcctaagctagcttcatctgttttttcttttctgaatttaactgatgatggtgtgag------tttaatcag----------
  ||||||| || |||||||||||||||||||| || || || ||||||||  |  | || ||||| ||||||||    || | |||   |||   |||||    || | ||| ||  | | | |  | || |   |  ||       |   ||||  |      ||| || ||          
AATGATGCTTGTTGGGTGGGGCGGCAACAACGGATCCACTCTCACGGCTGGTATTCTTGCTAACAGAGAgtaagtcttagacctctccttctcgcattttcgtgttatgttagattggtttatctggttttctacaatgttgctcttcgtctgtgtctgctaacattttattagggtgtaacag

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|29646112|gb|CB651119.1|CB651119
EST:     GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
EST: gi|58664958|gb|CK053644.1|CK053644
EST:     GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
EST: gi|58609519|gb|CK037552.1|CK037552
EST:     GGCGGCGACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
EST: gi|58606593|gb|CK034626.1|CK034626
EST:     GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
EST: gi|58686865|gb|CK075552.1|CK075552
EST:     GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
EST: gi|58602603|gb|CK013131.1|CK013131
EST:     GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
EST: gi|86826249|gb|CI311085.1|CI311085
EST:     GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
EST: gi|29616445|gb|CB621457.1|CB621457
EST:     GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGA                         GGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG
genomic: GGCGGCAACAACGGCTCAACGCTGACGGCTGGGGTCATCGCCAACAGGGAgtaagtgatc ... gtttaatcagGGGAATCTCATGGGCGACCAAGGACAAGGTGCAGCAAGCCAACTACTATGG