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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTCCAAGCCTCCGGCTATCAGCTTTACTGCCCTGCTTGGAGTTGCCTGGATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcgaaatttatatttgtttttttccctcctcctttcagttcctatttgaacagatttagttgtaatcatctgtacaaagtgtatgtcagatatc...

Basic information

species Oryza sativa
transcript LOC_Os01g28680.5
intron # 2
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|88342829|gb|CI640162.1|CI640162
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGG
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGG
EST: gi|88342961|gb|CI641487.1|CI641487
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88328210|gb|CI651216.1|CI651216
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACA
EST: gi|33675917|gb|CF304156.1|CF304156
EST:     GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88354194|gb|CI637760.1|CI637760
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACA
EST: gi|88825236|gb|CI775801.1|CI775801
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAG
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAG
EST: gi|88735370|gb|CI758878.1|CI758878
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88399733|gb|CI583467.1|CI583467
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAA
EST: gi|117240479|gb|CT842830.1|CT842830
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|33675624|gb|CF303863.1|CF303863
EST:     GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88342069|gb|CI644406.1|CI644406
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88369421|gb|CI580443.1|CI580443
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88364467|gb|CI644545.1|CI644545
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAA
EST: gi|29645896|gb|CB650903.1|CB650903
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88339240|gb|CI633811.1|CI633811
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88311942|gb|CI577548.1|CI577548
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCA
EST: gi|88734139|gb|CI757647.1|CI757647
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGA
EST: gi|88430434|gb|CI567453.1|CI567453
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|29666638|gb|CB662913.1|CB662913
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|58604598|gb|CK015126.1|CK015126
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88333331|gb|CI642368.1|CI642368
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGA
EST: gi|33676175|gb|CF304414.1|CF304414
EST:     GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88575342|gb|CI669487.1|CI669487
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88574956|gb|CI666725.1|CI666725
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88308181|gb|CI648008.1|CI648008
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGA
EST: gi|88734947|gb|CI758455.1|CI758455
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|58607592|gb|CK035625.1|CK035625
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88735174|gb|CI758682.1|CI758682
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCA
EST: gi|88343998|gb|CI638733.1|CI638733
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATC
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATC
EST: gi|88573428|gb|CI664999.1|CI664999
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88743825|gb|CI765411.1|CI765411
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88326398|gb|CI659828.1|CI659828
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88745555|gb|CI768915.1|CI768915
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGA
EST: gi|88358973|gb|CI619477.1|CI619477
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|33674946|gb|CF303185.1|CF303185
EST:     GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|33676806|gb|CF305045.1|CF305045
EST:     GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: GCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88740010|gb|CI763518.1|CI763518
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88851824|gb|CI679382.1|CI679382
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGA
EST: gi|88341076|gb|CI638632.1|CI638632
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAG
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAG
EST: gi|88368394|gb|CI577665.1|CI577665
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGATCATGTCAT
EST: gi|88346127|gb|CI634000.1|CI634000
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATG
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATG
EST: gi|88332238|gb|CI643655.1|CI643655
EST:     ATAGCTGGATTGCAAGCTTGTGTCCACGTNAAAGTCTTGTTCTTTTCGAG                         TATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGA
genomic: ATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcga ... ataatttcagTATCCAAACATGGGCTGGAAAAGGAAGACACATCATGGAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTCCAAGCCTCCGGCTATCAGCTTTACTGCCCTGCTTGGAGTTGCCTGGATAGCTGGATTGCAAGCTTGTGTCCACGTTAAAGTCTTGTTCTTTTCGAGgtgaatgcgaaatttatatttgtttttttccctcctcctttcagttcctatttgaacagatttagttgtaatcatctgtacaaagtgtatgtcagatatc

- - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT