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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTTGATTGGTAGCTGTGTTCGTAGCAATAACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatcatgataaatgatcattactcactcaagagtcatatgttcaaaccttatctatccaatgcaattctccttttcatgatactactgtggtttc...

Basic information

species Oryza sativa
transcript LOC_Os12g43950.1
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|88324428|gb|CI566241.1|CI566241
EST:     AAAGCCTGGCATAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAG                         GGAAGTTGAACGGGATCAAGTTTAGTCTGGATAAGAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
EST: gi|88403303|gb|CI573026.1|CI573026
EST:     ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAG                         GGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
EST: gi|428262|gb|D24410.1|D24410
EST:     ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAG                         GGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
EST: gi|88725163|gb|CI748422.1|CI748422
EST:     ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAG                         GGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
EST: gi|88425781|gb|CI571681.1|CI571681
EST:     ACAGCCTGGCAGAGAATCTTTGACAAGTTGCAGTCTATTAGTTCAACAAG                         GGAAGTTGAAAGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
EST: gi|33677645|gb|CF305884.1|CF305884
EST:     ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCATTCTATTAGTTCAACAAG                         GGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
EST: gi|1438555|gb|U60305.1|U60305
EST:     ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTAT-AGTTCAACAAG                         GGAAGGTTGAACGGGATCA-GTTT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAG-TTGAACGGGATCAAGTTT
EST: gi|29629670|gb|CB634679.1|CB634679
EST:     ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAG                         GGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
EST: gi|4881153|gb|AU065452.1|AU065452
EST:     ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAG                         GGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT
genomic: ACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatca ... tcaattgcagGGAAGTTGAACGGGATCAAGTTTAGTCTGGATAACAAAATATTGATGTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTTGATTGGTAGCTGTGTTCGTAGCAATAACAGCCTGGCAGAGAATCTTTGAGAAGTTGCAGTCTATTAGTTCAACAAGgtactcatcatgataaatgatcattactcactcaagagtcatatgttcaaaccttatctatccaatgcaattctccttttcatgatactactgtggtttc

- - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT