Skip to another splice site:
1  
 5'  3'   
2  
 5'  3'   
3  
 5'  3'   
4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGGTCTTCGTCATGAACAGAAGCTGAGATCTTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattatgctattgattgatgttgcttgcttatgtagaagaatatgttttttgctttatgttgtatccttcagtttcttgatgtattcagttcttgt...

Basic information

species Oryza sativa
transcript LOC_Os01g07360.2
intron # 3
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|88335762|gb|CI647118.1|CI647118
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|88363375|gb|CI643233.1|CI643233
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|88330175|gb|CI658480.1|CI658480
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTG
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTG
EST: gi|33677737|gb|CF305976.1|CF305976
EST:     AGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: AGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|88324875|gb|CI644884.1|CI644884
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|58671469|gb|CK060155.1|CK060155
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|88324856|gb|CI644864.1|CI644864
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|88376912|gb|CI639237.1|CI639237
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|88342892|gb|CI640225.1|CI640225
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCT
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCT
EST: gi|88338642|gb|CI644099.1|CI644099
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAA
EST: gi|88348195|gb|CI637656.1|CI637656
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAAC
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAAC
EST: gi|33797289|gb|CF324507.1|CF324507
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
EST: gi|88381557|gb|CI682215.1|CI682215
EST:     TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAG                         TTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA
genomic: TTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattat ... acatttatagTTTTGAAGATACCTGAACAATGAAGCCACCTTTGGAGAGGAACCCTACCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTGGTCTTCGTCATGAACAGAAGCTGAGATCTTTGGTGCAGGATCCTCACCTCCGGTTCTGAAAGAACCCCTGTTTCCCAGgtgagattatgctattgattgatgttgcttgcttatgtagaagaatatgttttttgctttatgttgtatccttcagtttcttgatgtattcagttcttgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC