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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcactgttgctttaggaagtctatggattaacaaactaatttcccacttctgatttcttctatgtattttcgttggtagGGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAGCTTGACTCCTCTAGTTCAATGCACACCACACATGTGCCCAATAAGAGTG

Basic information

species Oryza sativa
transcript LOC_Os03g30260.1
intron # 4
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|163927448|gb|EG709928.1|EG709928
EST:     CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAGGAAGCTGTGTGGA                         GGGTAATATCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCA
genomic: CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAGGAAGCTGTGTGGAgtaagcactg ... tcgttggtagGGGTAAT-TCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCA
EST: gi|66918100|gb|CX104948.1|CX104948
EST:     CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAG-AAGCTGTGTGGA                         GGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAG
genomic: CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAGGAAGCTGTGTGGAgtaagcactg ... tcgttggtagGGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAG
EST: gi|58681522|gb|CK070209.1|CK070209
EST:     CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAGGAAGCTGTGTGGA                         GGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAG
genomic: CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAGGAAGCTGTGTGGAgtaagcactg ... tcgttggtagGGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAG
EST: gi|58681123|gb|CK069810.1|CK069810
EST:     CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAGGAAGCTGTGTGGA                         GGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAG
genomic: CCGAAATGTGCGTGTGGCTGCCAGAATAAGAAGCCAGGAAGCTGTGTGGAgtaagcactg ... tcgttggtagGGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggattaacaaactaatttcccacttctgatttcttctatgtattttcgttggtagGGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAGCTTGACTCCTCTAGTTCAATGCACACCACACATGTGCCCAATAAGAGTG
                                          ttttcgtt  CT-rich tract
        aaactaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcactgttgctttaggaagtctatggattaacaaactaatttcccacttctgatttcttctatgtattttcgttggtagGGGTAATTCGCCTTATTTGGCGTCTGTGGTGAATGGACCTGGCAAGGGCAGCTTGACTCCTCTAGTTCAATGCACACCACACATGTGCCCAATAAGAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC