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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGTGTACCTTATACCGGGACTGAAGCATGGACCAGATCTTTGGGCTACGGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatcacacgtatccccaaattttactagttgaattattaccctcagagtaaatttactcaacagctgctatcattgcttttatgaaaggaaaccaaaagattctaattggattttatttccagaaactcaaactatataaatatatatgatattcatcggtcagtctacttatattatattatgtaactcgtcag

Basic information

species Oryza sativa
transcript LOC_Os12g15470.2
intron # 12
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|86537567|gb|CI177773.1|CI177773
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88849809|gb|CI001515.1|CI001515
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|29638179|gb|CB643188.1|CB643188
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88484642|gb|CI421913.1|CI421913
EST:     ACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: ACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86862301|gb|CI330790.1|CI330790
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCCTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86501069|gb|CI143702.1|CI143702
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86485628|gb|CI128261.1|CI128261
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88903221|gb|CI088759.1|CI088759
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86537559|gb|CI177765.1|CI177765
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|89166421|gb|CI103511.1|CI103511
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|29644492|gb|CB649499.1|CB649499
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|29668082|gb|CB664357.1|CB664357
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGTTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86883893|gb|CI328817.1|CI328817
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88245431|gb|CI245280.1|CI245280
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|29659837|gb|CB656112.1|CB656112
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86899737|gb|CI327554.1|CI327554
EST:     GAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAA-GTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88957594|gb|CI011523.1|CI011523
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88901595|gb|CI001703.1|CI001703
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86594292|gb|CI251164.1|CI251164
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88248338|gb|CI248187.1|CI248187
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86482898|gb|CI125531.1|CI125531
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGNCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86482776|gb|CI125409.1|CI125409
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86259349|gb|CI008026.1|CI008026
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|29661784|gb|CB658059.1|CB658059
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|86842643|gb|CI341788.1|CI341788
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|33684072|gb|CF312311.1|CF312311
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
EST: gi|88995442|gb|CI022765.1|CI022765
EST:     GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGG                         GTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG
genomic: GGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatca ... aactcgtcagGTACACCCAAGGATATGAACATGGCCTCACCTTTGCTACCATTAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGTGTACCTTATACCGGGACTGAAGCATGGACCAGATCTTTGGGCTACGGAGTTATTGATTCATGGAGACCGTGGCACCTGAATGGCCAAGTTTCTGGgtattaatcacacgtatccccaaattttactagttgaattattaccctcagagtaaatttactcaacagctgctatcattgcttttatgaaaggaaaccaaaagattctaattggattttatttccagaaactcaaactatataaatatatatgatattcatcggtcagtctacttatattatattatgtaactcgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA