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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAATTGTTCAAGCTGCTGCAATGCAGGGTTGGCAGAGGGTGGAGGCTTACGAGGCGCCATCTTTTCCAGTAAAGAAGCAGCTGCCTTCCTTTCTCAAAgtaattatctttctggttcttgcactctttcaattgctggtggttgttgcgcatttttatatttgttaattgctagtggctgttccacttctttttccaa...

Basic information

species Oryza sativa
transcript LOC_Os09g39660.2
intron # 8
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|218494666|gb|FG965506.1|FG965506
EST:     ACGAGGCGCCATCTTTTCCAGTAAAGAAGCAGCTGCCTTCCTTTCTCAAA                         GATGGAAGGAAGCAATAAACGCAGATCA
genomic: ACGAGGCGCCATCTTTTCCAGTAAAGAAGCAGCTGCCTTCCTTTCTCAAAgtaattatct ... gtttttgtagGATGGAAGGAAGCAATAAACGCAGATCA
EST: gi|86429952|gb|CI082375.1|CI082375
EST:     AAAGAAGCAGCTGCCTTCCTTTCTCAAA                         GATGGAAGGAAGCAATATACGCAGATCATGTGAAGCTTGTCCTGTGCCCTG
genomic: AAAGAAGCAGCTGCCTTCCTTTCTCAAAgtaattatct ... gtttttgtagGATGGAAGGAAGCAATAAACGCAGATCATGTGAAGCTTGTCCTGTGCCCTG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACAATTGTTCAAGCTGCTGCAATGCAGGGTTGGCAGAGGGTGGAGGCTTACGAGGCGCCATCTTTTCCAGTAAAGAAGCAGCTGCCTTCCTTTCTCAAAgtaattatctttctggttcttgcactctttcaattgctggtggttgttgcgcatttttatatttgttaattgctagtggctgttccacttctttttccaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC