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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAGTTTTAGAGGTGGTGCGGGTTCGATCACGTGGAGTTCTATTGGTGTTCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagtaattatctcgcgaatcatattatttgttgcgtgcgcactaatttctgacatggcatctaatttcttctcag

Basic information

species Oryza sativa
transcript LOC_Os03g63020.1
intron # 2
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|88718034|gb|CI741544.1|CI741544
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTA
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTA
EST: gi|88324687|gb|CI587656.1|CI587656
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|29628840|gb|CB633851.1|CB633851
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|29644978|gb|CB649985.1|CB649985
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|29633043|gb|CB638052.1|CB638052
EST:     CAGTGACTCTTGGCAAAAGTTCTNCTTGTAAA-TCGACGACGATGGAAAG                         GTACAAAGTGA
genomic: CAGTGACTCTTGGCAAAAGTTCT-CTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGA
EST: gi|117226423|gb|CT848659.1|CT848659
EST:     TCAGTGACTCTTGGCAAAAGTTCTCGTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|29633012|gb|CB638021.1|CB638021
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|88417218|gb|CI576292.1|CI576292
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGAT
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGAT
EST: gi|88693186|gb|CI736761.1|CI736761
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTT
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTT
EST: gi|88298944|gb|CI567947.1|CI567947
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATA-GGGAGATAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAG
EST: gi|29613394|gb|CB618407.1|CB618407
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|29656191|gb|CB652466.1|CB652466
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|66918933|gb|CX105781.1|CX105781
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGG
EST: gi|88571817|gb|CI663190.1|CI663190
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGG
EST: gi|88389742|gb|CI626511.1|CI626511
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATG-AAAG                         GGTACAAAGTGATAAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagG-TACAAAGTGATAAG
EST: gi|88426056|gb|CI604345.1|CI604345
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGAAGACCATGGAAAG                         GTACAAAGTGATAAGGGAGATA
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATA
EST: gi|88415452|gb|CI586658.1|CI586658
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACCATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGC
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGC
EST: gi|29613119|gb|CB618132.1|CB618132
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
EST: gi|29663526|gb|CB659801.1|CB659801
EST:     TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAG                         GTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG
genomic: TCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagta ... ttcttctcagGTACAAAGTGATAAGGGAGATAGGCGATGGCACCTGTGGGAATGTTTTTAG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGAGTTTTAGAGGTGGTGCGGGTTCGATCACGTGGAGTTCTATTGGTGTTCAGTGACTCTTGGCAAAAGTTCTCTTGTAAAATCGACGACGATGGAAAGgtcagcagtaattatctcgcgaatcatattatttgttgcgtgcgcactaatttctgacatggcatctaatttcttctcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA