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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctttttcctttcttccaattaattattcgactgactatttgacatgtttttccccactcggtaatctttatgaacaaatgcag

Basic information

species Oryza sativa
transcript LOC_Os03g64020.2
intron # 5
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|86255079|gb|CI061984.1|CI061984
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|38475301|gb|CF959434.1|CF959434
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|86597983|gb|CI278373.1|CI278373
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|117243743|gb|CT843209.1|CT843209
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|58589439|gb|CF987747.1|CF987747
EST:     GTTCTTCTTCATCGATGAGTGGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|88995899|gb|CI037190.1|CI037190
EST:     TTGACTGGCTTTGAGATCGACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: TTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|58030632|gb|CX728175.1|CX728175
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|38475842|gb|CF959975.1|CF959975
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTGGGCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|29687940|gb|CB684215.1|CB684215
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|29687939|gb|CB684214.1|CB684214
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
EST: gi|29682412|gb|CB678687.1|CB678687
EST:     GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG                         CTGCCAGAGCCTTTCAGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA
genomic: GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctt ... acaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGgtaaattctttttcctttcttccaattaattattcgactgactatttgacatgtttttccccactcggtaatctttatgaacaaatgcag

- - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - AGATCA