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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCATAATGGGGACACCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatcttttgtacagaaatcatttgccatccttggggcagttttcagttagatgtttttttcactaaaaattgcccgttctgtctcaaggttcacat...

Basic information

species Oryza sativa
transcript LOC_Os01g61810.3
intron # 7
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|157650082|gb|EX449716.1|EX449716
EST:     CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
genomic: CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
EST: gi|88465881|gb|CI524831.1|CI524831
EST:     CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
genomic: CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
EST: gi|88490403|gb|CI427675.1|CI427675
EST:     TCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
genomic: TCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
EST: gi|218487228|gb|FG968027.1|FG968027
EST:     CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAG                         TTATTATCCATCTGT
genomic: CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGT
EST: gi|88457008|gb|CI529209.1|CI529209
EST:     CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
genomic: CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
EST: gi|25797854|gb|CA753815.1|CA753815
EST:     CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
genomic: CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
EST: gi|1631561|gb|C19290.1|C19290
EST:     CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTNGTGTCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGANCCCACATTAGGGCCATATTTATTAGT
genomic: CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
EST: gi|88455291|gb|CI519312.1|CI519312
EST:     CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
genomic: CCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
EST: gi|86507572|gb|CI150205.1|CI150205
EST:     AGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAG                         TTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT
genomic: AGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatctt ... tttgctgcagTTATTATCCATCTGTTAAGGAAGAACCCACATTAGGGCCATATTTATTAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCATAATGGGGACACCTAAAGATGAGGACAGTGAAAATTTTCAGTAACTGGTGTCCTCTGTGAGgtaagatcttttgtacagaaatcatttgccatccttggggcagttttcagttagatgtttttttcactaaaaattgcccgttctgtctcaaggttcacat

- - - - - - - - - - AAGATG