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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGAGCAGCCGACGTCATTCCTGGAGTTGTGCCATGCCGCCATGGAGCTTCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCGgtgagcacccagcagcctatacaacatacatgcatgcatccctttgggtaaatccagtctatagcacgacatgcaccaccacccgaaaacatcctctgct...

Basic information

species Oryza sativa
transcript LOC_Os08g12449.9
intron # 3
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|218485628|gb|FG954877.1|FG954877
EST:     TCACCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCG                         GTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
genomic: TCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCGgtgagcaccc ... ttgcttgcagGTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
EST: gi|218501117|gb|FG969544.1|FG969544
EST:     TCACCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCG                         GTATTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
genomic: TCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCGgtgagcaccc ... ttgcttgcagGTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
EST: gi|218497006|gb|FG952577.1|FG952577
EST:     TCACCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCG                         GTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
genomic: TCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCGgtgagcaccc ... ttgcttgcagGTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
EST: gi|88211704|gb|CI211344.1|CI211344
EST:     TGGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCG                         GTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
genomic: TCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCGgtgagcaccc ... ttgcttgcagGTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
EST: gi|88486859|gb|CI424130.1|CI424130
EST:     TCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCG                         GTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG
genomic: TCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCGgtgagcaccc ... ttgcttgcagGTTTTAGATTTAGTCTTTGAGTGATGCGGGTAATCGACTGCTTCTTCTAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCGAGCAGCCGACGTCATTCCTGGAGTTGTGCCATGCCGCCATGGAGCTTCGCCGTCGCTGTGGCTCTGCAGACATCCCTAGCCTTGTCTAGCATCTCGgtgagcacccagcagcctatacaacatacatgcatgcatccctttgggtaaatccagtctatagcacgacatgcaccaccacccgaaaacatcctctgct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacccg