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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAACATTGCTGCCTTCCATAAAACGATTCCTTCCAAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACTgtatgtctgtaggacccaaacctcttcttttttttttttttgctcaactcattggttcaattgtgtatcatatgccagattgttgcatctgtgtatctgtcagattggtgcaattatgaatcatgttacaagctcatgtcttggtggcctttttaagttcattaatttcttatttcag

Basic information

species Oryza sativa
transcript LOC_Os02g02530.1
intron # 5
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|29629871|gb|CB634880.1|CB634880
EST:     AAA-GAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACT                         CGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGGAT
genomic: AAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACTgtatgtctgt ... cttatttcagCGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGGAT
EST: gi|58684751|gb|CK073438.1|CK073438
EST:     AAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACT                         CGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGGAT
genomic: AAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACTgtatgtctgt ... cttatttcagCGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGGAT
EST: gi|58590779|gb|CF989087.1|CF989087
EST:     AAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACT                         CGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCC
genomic: AAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACTgtatgtctgt ... cttatttcagCGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCC
EST: gi|701074|gb|D47365.1|D47365
EST:     AAAGAATGGAATGATAATGCCATCGTTTTGGNGTGCTCCATTTTTCCACT                         TNGCTCTCAGTGGNGGTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGGG
genomic: AAAGAATGGAATGATAATGCCATCGTTT-GGTGTGCTCCATTTTTCCACTgtatgtctgt ... cttatttcagC-GCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGG-
EST: gi|701499|gb|D47790.1|D47790
EST:     AAAGAATGGAATAATAATGCCATCGTTTTGGTGTGCTCCATTTTTCCACT                         NGCTCTCAGTGGAGTTTACCA-GTCTCAAAGTTGTTGCATCAATCCCA
genomic: AAAGAATGGAATGATAATGCCATCGTTT-GGTGTGCTCCATTTTTCCACTgtatgtctgt ... cttatttcagCGCTCTCAGTGGAGTTTACCAAGTCTCAA-GTTGTTGCATCAATCCCA
EST: gi|58674882|gb|CK063569.1|CK063569
EST:     AAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACT                         CGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGGAT
genomic: AAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACTgtatgtctgt ... cttatttcagCGCTCTCAGTGGAGTTTACCAAGTCTCAAGTTGTTGCATCAATCCCAGGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAACATTGCTGCCTTCCATAAAACGATTCCTTCCAAAAGAATGGAATGATAATGCCATCGTTTGGTGTGCTCCATTTTTCCACTgtatgtctgtaggacccaaacctcttcttttttttttttttgctcaactcattggttcaattgtgtatcatatgccagattgttgcatctgtgtatctgtcagattggtgcaattatgaatcatgttacaagctcatgtcttggtggcctttttaagttcattaatttcttatttcag

- - - - - - - - - - - - - - - - - -  AAAGAA