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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcttgtgaccatttaaaattacaactaaatatttttgcaagcttgacccaatagatccatcttggtgcagCCCCTAATGAATCCATTGACTGCTGCTGCTGCTGCGGCGGCGTCAGCTGCTGCTGCCGGGACTAGTTCAGGAAATGCTGCTCCACCGGCAATAACTGCAC

Basic information

species Oryza sativa
transcript LOC_Os03g14980.2
intron # 16
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|58659010|gb|CK047690.1|CK047690
EST:     TGAGACTGTAACAAAG                         -CCCTAATGAATCCATTGACTGCTGCTGCTGCTGCGGCGGCGTCAGCTGC-
genomic: TGAGACTGTAACAAAGgtaagttctt ... cttggtgcagCCCCTAATGAATCCATTGACTGCTGCTGCTGCTGCGGCGGCGTCAGCTGCT
EST: gi|29671653|gb|CB667928.1|CB667928
EST:     AAAATCGTTCATTTGATGCTTCTCGGAGTGCGTCTGAGACTGTAACAAAA                         CCCCTAATGAATCCATTGACTGCTGCTGCTGCTGC
genomic: AAAATCGTTCATTTGATGCTTCTCGGAGTGCGTCTGAGACTGTAACAAAGgtaagttctt ... cttggtgcagCCCCTAATGAATCCATTGACTGCTGCTGCTGCTGC
EST: gi|44675806|gb|CR289240.1|CR289240
EST:     AAATCGTTCATTTGATGCTTCTCAGGAGTGCGTCTGAGACTGTAACAAAG                         CCCCTAATTGA-TCCATTTGACTGCTGCT
genomic: AAATCGTTCATTTGATGCTTCTC-GGAGTGCGTCTGAGACTGTAACAAAGgtaagttctt ... cttggtgcagCCCCTAAT-GAATCCATT-GACTGCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattacaactaaatatttttgcaagcttgacccaatagatccatcttggtgcagCCCCTAATGAATCCATTGACTGCTGCTGCTGCTGCGGCGGCGTCAGCTGCTGCTGCCGGGACTAGTTCAGGAAATGCTGCTCCACCGGCAATAACTGCAC
                                        tccatctt  CT-rich tract
     acaactaaatattttt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttcttgtgaccatttaaaattacaactaaatatttttgcaagcttgacccaatagatccatcttggtgcagCCCCTAATGAATCCATTGACTGCTGCTGCTGCTGCGGCGGCGTCAGCTGCTGCTGCCGGGACTAGTTCAGGAAATGCTGCTCCACCGGCAATAACTGCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT