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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGTTGCTGGGTTTCTGGAAGAGCAGCTCTACAGGTGGCTCCGGGCTGCAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaatctgaattggatttgtagcagtgtactagtacttactactcggtgatgattaatgtgactgaacgggcgtgttgattgattgtcaagag

Basic information

species Oryza sativa
transcript LOC_Os01g73910.2
intron # 6
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|29624825|gb|CB629836.1|CB629836
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|58687641|gb|CK076328.1|CK076328
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|29624826|gb|CB629837.1|CB629837
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|86862554|gb|CI345593.1|CI345593
EST:     ACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: ACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|88205420|gb|CI205269.1|CI205269
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|313079079|gb|HO213970.1|HO213970
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|58690986|gb|CK079673.1|CK079673
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|88663188|gb|CI478952.1|CI478952
EST:     TAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: TAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|29689228|gb|CB685503.1|CB685503
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|86908523|gb|CI318907.1|CI318907
EST:     GACTTG-GATCGA-CCGCTCTTCTTGTAGTGCAGGACCCCAAGG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCTTCGCTTGC
genomic: GACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAA-Ggtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGC
EST: gi|4714855|gb|AU055972.1|AU055972
EST:     CAGANCTGACTTGTGATCGAGCGGCTCTTCTTGTNGTCCAGGCCCCCAAG                         GTTGTGATATCTNTGCTGATGAAACTGGCCGGNGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|22305824|gb|BQ907046.1|BQ907046
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
EST: gi|86601574|gb|CI253902.1|CI253902
EST:     CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAG                         GTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG
genomic: CAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaa ... ttgtcaagagGTTGTGATATCTGTGCTGATGAAACTGGCCGGAGGGTGCCCGTCGCTTGCG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGGTTGCTGGGTTTCTGGAAGAGCAGCTCTACAGGTGGCTCCGGGCTGCAGAGCTGACTTGTGATCGAGCGGCTCTTCTTGTAGTGCAGGACCCCAAGgtaatcaaaatctgaattggatttgtagcagtgtactagtacttactactcggtgatgattaatgtgactgaacgggcgtgttgattgattgtcaagag

- - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA