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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATAGCAAAGAGTTTCTCAATGGTGGTTCCATCCCTTCGTTTGGTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaatttcaagctttaccactaaacagcaattcccacatccgcagctcactatccactcaattctaactgtactgatgaatcaattttcatattgcag

Basic information

species Oryza sativa
transcript LOC_Os06g09370.2
intron # 4
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|58608306|gb|CK036339.1|CK036339
EST:     GTACTGTCCTGCAGGCACTAGGAGCTGGTGGTTTGAAGGCTGCTCAACAG                         GAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
genomic: GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaattt ... catattgcagGAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
EST: gi|58591002|gb|CF989310.1|CF989310
EST:     GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAG                         GAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
genomic: GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaattt ... catattgcagGAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
EST: gi|218483231|gb|FG956163.1|FG956163
EST:     GTCCTGCAGGCACTA-GAGCGGGTGG-TTGAAGGCTGCTCAACAG                         GAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTA-TCA-
genomic: GTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaattt ... catattgcagGAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
EST: gi|58602916|gb|CK013444.1|CK013444
EST:     GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGGTCAACAG                         GAGCAAAATATCCGGAATATACCTCTCCCTACGTTCACATCTGGTAGTCAT
genomic: GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaattt ... catattgcagGAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
EST: gi|218482847|gb|FG953463.1|FG953463
EST:     GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAG                         GAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
genomic: GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaattt ... catattgcagGAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
EST: gi|58603374|gb|CK013902.1|CK013902
EST:     GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAG                         GAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT
genomic: GTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaattt ... catattgcagGAGCAAAATATCCGGAATATACCTCTCCCTACATTCACATCTGGTAGTCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATAGCAAAGAGTTTCTCAATGGTGGTTCCATCCCTTCGTTTGGTACTGTCCTGCAGGCACTAGGAGCGGGTGGTTTGAAGGCTGCTCAACAGgtttcaatttcaagctttaccactaaacagcaattcccacatccgcagctcactatccactcaattctaactgtactgatgaatcaattttcatattgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT