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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCAACCAGCAACTCCAGTTGCCTCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttatatctattcctctaatttgtataatgtcaaatattgttttccttatttattatcatgtcattcgtag

Basic information

species Oryza sativa
transcript LOC_Os06g15360.1
intron # 4
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|29629490|gb|CB634499.1|CB634499
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58682592|gb|CK071279.1|CK071279
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58665658|gb|CK054344.1|CK054344
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|33687245|gb|CF315484.1|CF315484
EST:     CAGTTGCAAGAACACCACCTCCACAAGCACCTGGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: CAGTTGCAAGAACACCACCTCCACAAGCACCTG-TTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29643232|gb|CB648239.1|CB648239
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|33654535|gb|CF277149.1|CF277149
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29655833|gb|CB652108.1|CB652108
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|33656015|gb|CF278629.1|CF278629
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58670606|gb|CK059292.1|CK059292
EST:     AGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: AGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58670896|gb|CK059582.1|CK059582
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29631166|gb|CB636175.1|CB636175
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29669284|gb|CB665559.1|CB665559
EST:     TCACTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29636049|gb|CB641058.1|CB641058
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29673854|gb|CB670129.1|CB670129
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|218502296|gb|FG962509.1|FG962509
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58586179|gb|CF984487.1|CF984487
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|700253|gb|D46544.1|D46544
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29657664|gb|CB653939.1|CB653939
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|117226238|gb|CT846174.1|CT846174
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58611993|gb|CK039705.1|CK039705
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29670071|gb|CB666346.1|CB666346
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29668712|gb|CB664987.1|CB664987
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29658464|gb|CB654739.1|CB654739
EST:     TCAGTTGCAAGAACACCACCTCCACTAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCTCTCCGGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29632660|gb|CB637669.1|CB637669
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29643186|gb|CB648193.1|CB648193
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29660320|gb|CB656595.1|CB656595
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58596519|gb|CK007047.1|CK007047
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|29631164|gb|CB636173.1|CB636173
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
EST: gi|58667186|gb|CK055872.1|CK055872
EST:     TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACC                         GGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC
genomic: TCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttata ... tcattcgtagGGCACCTCCAAGTGCACAGCCTCCAGTTGCTTCTGCCACTCCAGCTGCTGC

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTCAACCAGCAACTCCAGTTGCCTCAGTTGCAAGAACACCACCTCCACAAGCACCTGTTGTTACACCTGAACCgtgagttatatctattcctctaatttgtataatgtcaaatattgttttccttatttattatcatgtcattcgtag

- - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - AAGAAC