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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaatacaaatctatatatagcacttcacatctatatatatgatggcataactttgtttcatgtcatggactaagtttcatccatgtcatcaaaattttag

Basic information

species Oryza sativa
transcript LOC_Os11g04030.1
intron # 6
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|29680054|gb|CB676329.1|CB676329
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
EST: gi|29674310|gb|CB670585.1|CB670585
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
EST: gi|29644401|gb|CB649408.1|CB649408
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
EST: gi|33677870|gb|CF306109.1|CF306109
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGA
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGA
EST: gi|88411903|gb|CI571395.1|CI571395
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
EST: gi|29682083|gb|CB678358.1|CB678358
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
EST: gi|29679865|gb|CB676140.1|CB676140
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
EST: gi|33678908|gb|CF307147.1|CF307147
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
EST: gi|29678070|gb|CB674345.1|CB674345
EST:     ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATT                         GTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC
genomic: ACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaataca ... aaaattttagGTGAGCACAGCATGGGGAATAGGTCTTGTAGTTGGTCCAGCAATTGGAGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTACTCTATCGAAGTTTGCCGAGCTGAACATCAAGCTCTGGGCCTATCAATTgtaaaatacaaatctatatatagcacttcacatctatatatatgatggcataactttgtttcatgtcatggactaagtttcatccatgtcatcaaaattttag

- - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - -  CAAGCT