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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACCAAGCTGCCTTCATCTTGAGCATACCAAAGAGGAAGCCAATGGACGAGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacatcttcagctctcccaacctcacaatgccatacaaaatcttatgatgcgtcgaactttttttgacggaaatgatgcgtcgaactaacattgctgttaaaatctcag

Basic information

species Oryza sativa
transcript LOC_Os03g57940.4
intron # 15
splice site 5'
intron type U2

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|88247437|gb|CI247286.1|CI247286
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|87024580|gb|CI259295.1|CI259295
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|88271635|gb|CI387688.1|CI387688
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|89178781|gb|CI391779.1|CI391779
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|88273426|gb|CI393832.1|CI393832
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|88455876|gb|CI526692.1|CI526692
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|87021813|gb|CI277980.1|CI277980
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|29616080|gb|CB621092.1|CB621092
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|58685128|gb|CK073815.1|CK073815
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCA-G                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCC
EST: gi|88269536|gb|CI380834.1|CI380834
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|86412466|gb|CI017334.1|CI017334
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
EST: gi|25801459|gb|CA757420.1|CA757420
EST:     AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAG                         GAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC
genomic: AGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacat ... aaaatctcagGAAAAATGGTCAAAGAACCTATACATCGCTTCAATCTGCTACGGCCGGACC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGACCAAGCTGCCTTCATCTTGAGCATACCAAAGAGGAAGCCAATGGACGAGACACAAGAAACTCTTCGAACTTCCTCCTTTCCCAGCAACCATGTCAAGgtacatacatcttcagctctcccaacctcacaatgccatacaaaatcttatgatgcgtcgaactttttttgacggaaatgatgcgtcgaactaacattgctgttaaaatctcag

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