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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCGGAATATTGATTGGTGCAATAGTTTTAGTATTAGCAGCATTATTTGGAGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatatatcaggacatatataattcaaacatcaaaattatctggtttactcttctcatctgtgctaaaaataacatgcag

Basic information

species Oryza sativa
transcript LOC_Os05g17604.4
intron # 16
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|29672836|gb|CB669111.1|CB669111
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29664574|gb|CB660849.1|CB660849
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29675944|gb|CB672219.1|CB672219
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29627532|gb|CB632543.1|CB632543
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29624376|gb|CB629387.1|CB629387
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29630956|gb|CB635965.1|CB635965
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29622648|gb|CB627659.1|CB627659
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29676653|gb|CB672928.1|CB672928
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29627200|gb|CB632211.1|CB632211
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
EST: gi|29680540|gb|CB676815.1|CB676815
EST:     AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAG                         AACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA
genomic: AGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatata ... taacatgcagAACTATACAACCTGGTTGGACGACCTGACGTTTTTAGTTATGCTGAGCTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCGGAATATTGATTGGTGCAATAGTTTTAGTATTAGCAGCATTATTTGGAGTGTTTACACTAGTAAAGAAGCGGAGAGCATTGGCACAACAGAAAGAAGgtattatatatcaggacatatataattcaaacatcaaaattatctggtttactcttctcatctgtgctaaaaataacatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG