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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGGAGGATCCTTCAAATTTCAAGGTCAATGGCATATACCCAGTTCGGAAGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacctttcaacctttcaaattctcttcttttgggtatcttgaacattcattctgttctccacattttttgtgccag

Basic information

species Oryza sativa
transcript LOC_Os01g13570.1
intron # 5
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|29688716|gb|CB684991.1|CB684991
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|88830391|gb|CI010591.1|CI010591
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|86841586|gb|CI336525.1|CI336525
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|88981933|gb|CI027510.1|CI027510
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|86896257|gb|CI330152.1|CI330152
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATTTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|88214195|gb|CI214044.1|CI214044
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|88284411|gb|CI405857.1|CI405857
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|29663287|gb|CB659562.1|CB659562
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|88550003|gb|CI479943.1|CI479943
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|88284410|gb|CI405856.1|CI405856
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|88528739|gb|CI456998.1|CI456998
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
EST: gi|29663288|gb|CB659563.1|CB659563
EST:     AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCA                         GGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC
genomic: AGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacct ... tttgtgccagGGAGAAAATATGTTGGTCGTTACTCACAAATCTATTTTGCGCGCACTCATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGGGAGGATCCTTCAAATTTCAAGGTCAATGGCATATACCCAGTTCGGAAGTTATGGGGAACAGCAAGAGAAGCTTGGAAGGAAATCTTGCTTACTCCAgtatgaacctttcaacctttcaaattctcttcttttgggtatcttgaacattcattctgttctccacattttttgtgccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA