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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatatgacagataataatgttttgtctcaaaataaatggtgtatcaatagaaagttcagctcttatcaatttataaaggatggtataatactttg...

Basic information

species Oryza sativa
transcript LOC_Os01g47262.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g47262.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA01G03710.1 (Glycine max), 5'ss of exon 8
ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatatgacagataataatgttttgtctcaaaataaatggtgtatcaatagaaagttcagctcttatcaatttataaagga--tggtataatactttg
||||| ||||| ||||  |||||| | |||||  | ||||||||||||||||| ||||||||||| |||  ||   || |  |  |||| |  | ||   |   || |  |   ||      |||| || || |||| || ||| ||   | |  || ||  |  
ACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAGgtgattg-atccaagttttttttgttattacacacttttcttg-taaaagcatttttttttcaactattgtcaacttgtaacggcattagagtattatctcc
















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|44677600|gb|CR291034.1|CR291034
EST:     AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG                         GTTGTGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
genomic: AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatat ... atttcttcagGTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
EST: gi|218493474|gb|FG952533.1|FG952533
EST:     AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG                         GTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
genomic: AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatat ... atttcttcagGTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
EST: gi|33658750|gb|CF281363.1|CF281363
EST:     AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG                         GTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
genomic: AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatat ... atttcttcagGTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
EST: gi|29670555|gb|CB666830.1|CB666830
EST:     AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG                         GTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
genomic: AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatat ... atttcttcagGTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
EST: gi|88226876|gb|CI224644.1|CI224644
EST:     AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG                         GTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
genomic: AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatat ... atttcttcagGTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
EST: gi|86496637|gb|CI139270.1|CI139270
EST:     AAACGTGTTTCTTATCATCAATTGATCTGCACACTTAATACTCCTACCAG                         GTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT
genomic: AAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatat ... atttcttcagGTTATGTTACCAGAGGCCGTTGCGATTGTGATTGCTCCCACTGATCCTACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAGgtaattatatgacagataataatgttttgtctcaaaataaatggtgtatcaatagaaagttcagctcttatcaatttataaaggatggtataatactttg

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