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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTCCTTCGGTGTTCCCTACCAGAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaatggtaactgtagattggcaagttgtagaagcggtcaaatgttttattttaggggcaaatgcaaatttgccactactttaaatcgttattg...

Basic information

species Oryza sativa
transcript LOC_Os02g15970.2
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|30227684|gb|CB965576.1|CB965576
EST:     GAACAAGAGAAGGATCCTAACGATGCGAATCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|426017|gb|D22705.1|D22705
EST:     GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAG                         A-G-G-AAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|33687072|gb|CF315311.1|CF315311
EST:     GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|86499914|gb|CI142547.1|CI142547
EST:     GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|30227453|gb|CB965345.1|CB965345
EST:     GAACAAGAGAAGGATCCTAACGATGCGAATCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTCCTTCGGTGTTCCCTACCAGAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaatggtaactgtagattggcaagttgtagaagcggtcaaatgttttattttaggggcaaatgcaaatttgccactactttaaatcgttattg

- - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT