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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACCGTGCCTTCTCTCCAGCAATGGGAGGTGGCATTCGACCTGATCTTACAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtacccccaaatccccaaactgttttcttcttccgagggaaagcccaagatggttccaaatttacctatactgtgcaccagctctcttgtccattt...

Basic information

species Oryza sativa
transcript LOC_Os02g06770.3
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|88478336|gb|CI415607.1|CI415607
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88553448|gb|CI483562.1|CI483562
EST:     ATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: ATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88542912|gb|CI472271.1|CI472271
EST:     CCAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88543595|gb|CI473616.1|CI473616
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88560174|gb|CI490812.1|CI490812
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88332112|gb|CI643529.1|CI643529
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88347687|gb|CI655040.1|CI655040
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88552202|gb|CI482333.1|CI482333
EST:     CTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88479926|gb|CI417197.1|CI417197
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|66918327|gb|CX105175.1|CX105175
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|163926082|gb|EG711810.1|EG711810
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88538683|gb|CI467735.1|CI467735
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|163925821|gb|EG709617.1|EG709617
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88307704|gb|CI644744.1|CI644744
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88560675|gb|CI491361.1|CI491361
EST:     AATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: AATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
EST: gi|88524163|gb|CI452057.1|CI452057
EST:     CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAG                         GCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA
genomic: CAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtaccc ... aattgtgcagGCAGGCATATTTTCAGCGAGAGGTAAGATCACGCATGCCAATGTTGAGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCACCGTGCCTTCTCTCCAGCAATGGGAGGTGGCATTCGACCTGATCTTACAAACACTGAGATTGACAAGCTTCTGCTCCAGAAATCTGCATTCAACAAGgttagtacccccaaatccccaaactgttttcttcttccgagggaaagcccaagatggttccaaatttacctatactgtgcaccagctctcttgtccattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT