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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactctctggacatatcaacattcaacaatttgataaattcatcttccaatgattcatctgcttgtcttcagGCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCTCCACCATTTAGCCATGTTTTTAGCTGGAAGGCAAGCGGATGCTCCTCAA

Basic information

species Oryza sativa
transcript LOC_Os02g45070.1
intron # 3
splice site 3'
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|29657068|gb|CB653343.1|CB653343
EST:     ATTCTGCAGGATGAGGAAGACAGCCTTGCTGTTGGGCAAGGTGCACAGAG                         GCGTGAGAGACCATTTAACGTCGTGATCAAATTTGCTGCACGCGCTGATCT
genomic: ATTCTGCAGGATGAGGAAGAGAGCCTTGCTGTTGGGCAAGGTGCACAGAGgtactctctg ... ttgtcttcagGCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCT
EST: gi|58653754|gb|CK042434.1|CK042434
EST:     ATTCTGCAGGATGAGGAAGAGAGCCTTGCTGTTGGGCAAGGTGCACAGAG                         GCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCT
genomic: ATTCTGCAGGATGAGGAAGAGAGCCTTGCTGTTGGGCAAGGTGCACAGAGgtactctctg ... ttgtcttcagGCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCT
EST: gi|29626578|gb|CB631589.1|CB631589
EST:     ATTCTGCAGGATGAGGAAGAGAGCCTTGCTGTTGGGCAAGGTGCACAGAG                         GCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCT
genomic: ATTCTGCAGGATGAGGAAGAGAGCCTTGCTGTTGGGCAAGGTGCACAGAGgtactctctg ... ttgtcttcagGCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacattcaacaatttgataaattcatcttccaatgattcatctgcttgtcttcagGCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCTCCACCATTTAGCCATGTTTTTAGCTGGAAGGCAAGCGGATGCTCCTCAA
           atttgat  putative branch site (score: 5)
                                            cttgtcttc  putative PPT
       aacaatttgataaatt  TA-rich tract
















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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactctctggacatatcaacattcaacaatttgataaattcatcttccaatgattcatctgcttgtcttcagGCGTGAGAGACCATTTAAGGTCGTGATCAAATTTGCTGCACGCGCTGATCTCCACCATTTAGCCATGTTTTTAGCTGGAAGGCAAGCGGATGCTCCTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC