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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACCCCCACCCCGCGACGCCGCCTAGCCGCGATTTTCCTGCGGGGTACTCCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgcgtgctggagctcgtgagctgtctatagggttttgattggagggattttcgtttgatccgttgtttctggtgaggtgaatgatgccggattcgtggatgcag

Basic information

species Oryza sativa
transcript LOC_Os03g44200.2
intron # 1
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|88367803|gb|CI570542.1|CI570542
EST:     CCACCGTCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCCTGCAT
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCC-TGCAT
EST: gi|88695425|gb|CI737928.1|CI737928
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|87008859|gb|CI304802.1|CI304802
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|88343389|gb|CI621757.1|CI621757
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|88359526|gb|CI621057.1|CI621057
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|86850269|gb|CI305508.1|CI305508
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|117227438|gb|CT846590.1|CT846590
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|88444159|gb|CI594532.1|CI594532
EST:     CCAGCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|88336843|gb|CI626923.1|CI626923
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|88726389|gb|CI750044.1|CI750044
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
EST: gi|88386061|gb|CI570696.1|CI570696
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCCTGCAT
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCC-TGCAT
EST: gi|88317275|gb|CI627924.1|CI627924
EST:     CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTG                         GTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC
genomic: CCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgc ... gtggatgcagGTAGCGCTCGCGTCCTGCTCTGTCGGGCGGCGATATGAAGCCCCCTGCATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAACCCCCACCCCGCGACGCCGCCTAGCCGCGATTTTCCTGCGGGGTACTCCACCGCCCCTGGAGGCTGGAGCCGTGCTCTCCGGATCGGCGTTGGATTGgtgagcccgcgtgctggagctcgtgagctgtctatagggttttgattggagggattttcgtttgatccgttgtttctggtgaggtgaatgatgccggattcgtggatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA