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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattatttccacaacttcttaatcatctacaacagtagtttgccatgataatatcctatgaccacttgtttttgctctgatttgatgaacatctag...

Basic information

species Oryza sativa
transcript LOC_Os01g16170.1
intron # 3
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|29663778|gb|CB660053.1|CB660053
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29677835|gb|CB674110.1|CB674110
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29639705|gb|CB644714.1|CB644714
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29679456|gb|CB675731.1|CB675731
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29630352|gb|CB635361.1|CB635361
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29629095|gb|CB634106.1|CB634106
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29616200|gb|CB621212.1|CB621212
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29672767|gb|CB669042.1|CB669042
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29677585|gb|CB673860.1|CB673860
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|58587497|gb|CF985805.1|CF985805
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29681319|gb|CB677594.1|CB677594
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|58657684|gb|CK046364.1|CK046364
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29624849|gb|CB629860.1|CB629860
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29663859|gb|CB660134.1|CB660134
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29641024|gb|CB646031.1|CB646031
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29678251|gb|CB674526.1|CB674526
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG
EST: gi|29664792|gb|CB661067.1|CB661067
EST:     GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACG                         CTGCCAACACAATTTTACATGGCTCTG
genomic: GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattat ... tatattgcagCTGCCAACACAATTTTACATGGCTCTG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACTTTTTTAACCTTATTGGCTGCTTCTTGGAACCTGAGACGgtaagattatttccacaacttcttaatcatctacaacagtagtttgccatgataatatcctatgaccacttgtttttgctctgatttgatgaacatctag

- - - - - - - - - - GCTGCT