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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCTGGGAATGGTCAAATGCGGGCACCCTGATGTCCTTGCTCAAGTTGCACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAGgtaatggtaccgatcaatctaatgttcatatgttttcccttatgtccctttcccttatcgtactttggtatgagtgggtgacacattccacatttcaaag...

Basic information

species Oryza sativa
transcript LOC_Os06g04560.1
intron # 17
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|40490466|gb|BX899941.1|BX899941
EST:     ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAG                         GAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTGGA
genomic: ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAGgtaatggtac ... atttcatcagGAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTGGA
EST: gi|58608519|gb|CK036552.1|CK036552
EST:     ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAG                         GAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTGCG
genomic: ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAGgtaatggtac ... atttcatcagGAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTG-G
EST: gi|58657075|gb|CK045755.1|CK045755
EST:     ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAG                         GAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTGGA
genomic: ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAGgtaatggtac ... atttcatcagGAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTGGA
EST: gi|38473948|gb|CF958080.1|CF958080
EST:     ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCGAG                         GAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTGGA
genomic: ACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAGgtaatggtac ... atttcatcagGAAATAAGGTGGGAAAATCGTTATTAATTGATGATGGTGCGCTTCCCTGGA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCTGGGAATGGTCAAATGCGGGCACCCTGATGTCCTTGCTCAAGTTGCACGTGGCATCGCAAACTTTGCTAAATGTGAATCTAGAGCAGCTACGCAAGgtaatggtaccgatcaatctaatgttcatatgttttcccttatgtccctttcccttatcgtactttggtatgagtgggtgacacattccacatttcaaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagtggg