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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGAAGCATATCCACCATGGGCTCATGGCCCTGGATATATAGTCTCAAGGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacactttctaacgatacaaatggacttctttttttaaaaaaaagagattgtcagccatgcagctcttaatctgctgcttcatgtttctaattgcatcag

Basic information

species Oryza sativa
transcript LOC_Os01g22550.2
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|88902631|gb|CI088169.1|CI088169
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
EST: gi|89180327|gb|CI044606.1|CI044606
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
EST: gi|58676893|gb|CK065580.1|CK065580
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
EST: gi|88226570|gb|CI226486.1|CI226486
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTTGAAGCATATCCACCATGGGCTCATGGCCCTGGATATATAGTCTCAAGGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacactttctaacgatacaaatggacttctttttttaaaaaaaagagattgtcagccatgcagctcttaatctgctgcttcatgtttctaattgcatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC