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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttacatggctaccatatgagctacttaacatcaattttcttctatgggtacatctcattatcaatgtcatgttggcctgaatattttggcattttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTTTTAAAAATGGCAGCTCCCAAGCCCATTGCTCGGCTTATTTCCCATGTCA

Basic information

species Oryza sativa
transcript LOC_Os10g32730.1
intron # 1
splice site 3'
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|58657262|gb|CK045942.1|CK045942
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|29631920|gb|CB636929.1|CB636929
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|29687643|gb|CB683918.1|CB683918
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|29636237|gb|CB641246.1|CB641246
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|29658982|gb|CB655257.1|CB655257
EST:     GCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|58688816|gb|CK077503.1|CK077503
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|29679504|gb|CB675779.1|CB675779
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|88449572|gb|CI579852.1|CI579852
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|33795313|gb|CF323528.1|CF323528
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|58692132|gb|CK080819.1|CK080819
EST:     GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GTCGCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
EST: gi|29659012|gb|CB655287.1|CB655287
EST:     GCCGGAGGCAGCTCCCTTGAAGGACGCCGTCGCCGGACACATGCGGG                         GTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT
genomic: GCCGGAGGCAGCTGCAGGGAAGGACGCCGTCGCCGGACACATGCGGGgtaagccgca ... attttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggtacatctcattatcaatgtcatgttggcctgaatattttggcattttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTTTTAAAAATGGCAGCTCCCAAGCCCATTGCTCGGCTTATTTCCCATGTCA
                                              ttttgtc  CT-rich tract
                                tgaatatttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttacatggctaccatatgagctacttaacatcaattttcttctatgggtacatctcattatcaatgtcatgttggcctgaatattttggcattttgtcagGTTGGGCTTCCCAGATAGCTTGTCTCTTGCTGCACTAAGCTCTTCCAATTTTTAAAAATGGCAGCTCCCAAGCCCATTGCTCGGCTTATTTCCCATGTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
ttacatg
- - - -gctacca
- - - - - - - - - agctact
- - - - - - - - - - - - - aacatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcctgaa