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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCATAGTGTCTCAGAGAGACAAATTACTAGTGACAGAAGTAGTGCTAACAAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAGgtatgctttgcttcatgccataatggttccattaagtattaccatcctcgcatttggacactgctagtagtaatgcgttgctttactgtacataatgcaa...

Basic information

species Oryza sativa
transcript LOC_Os01g31360.4
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|88220009|gb|CI219569.1|CI219569
EST:     AAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAG                         ATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
genomic: AAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAGgtatgctttg ... acaatcccagATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
EST: gi|86907495|gb|CI296530.1|CI296530
EST:     AAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAG                         ATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
genomic: AAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAGgtatgctttg ... acaatcccagATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
EST: gi|86859907|gb|CI321900.1|CI321900
EST:     TCAGAAGACACATCTAAAAGAAG                         ATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
genomic: TCAGAAGACACATCTAAAAGAAGgtatgctttg ... acaatcccagATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
EST: gi|89175396|gb|CI042417.1|CI042417
EST:     TAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAG                         ATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
genomic: TAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAGgtatgctttg ... acaatcccagATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
EST: gi|88975210|gb|CI023461.1|CI023461
EST:     AAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAG                         ATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
genomic: AAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAGgtatgctttg ... acaatcccagATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
EST: gi|89175478|gb|CI042499.1|CI042499
EST:     AAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAG                         ATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT
genomic: AAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAGgtatgctttg ... acaatcccagATCTCCAGCAAGTGAAGCAGAAACAAACACAAATCCAATCGACCGCATTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCCATAGTGTCTCAGAGAGACAAATTACTAGTGACAGAAGTAGTGCTAACAAGAGTAATAAAGATGATGATGAAGTTTCAGAAGACACATCTAAAAGAAGgtatgctttgcttcatgccataatggttccattaagtattaccatcctcgcatttggacactgctagtagtaatgcgttgctttactgtacataatgcaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG