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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTACAAAGCAAGGAACCCTCCTACCGCGTCGCTGAGCTGATGAAGGAGCTCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaatagtattccatttataagttctttctttttctcaagaaaaaaaaaccctacaattttatctgtggccttgcagttcttgtatgtggtatag...

Basic information

species Oryza sativa
transcript LOC_Os03g47740.2
intron # 2
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|88740038|gb|CI763546.1|CI763546
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88452896|gb|CI574443.1|CI574443
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88696270|gb|CI739845.1|CI739845
EST:     TCTGACGACTCGGATGCATTATTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTACCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88693943|gb|CI737981.1|CI737981
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88742178|gb|CI765686.1|CI765686
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88388095|gb|CI590371.1|CI590371
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88735320|gb|CI758828.1|CI758828
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88825079|gb|CI775644.1|CI775644
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|29644388|gb|CB649395.1|CB649395
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88739888|gb|CI761398.1|CI761398
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88430485|gb|CI569508.1|CI569508
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|66915032|gb|CX101880.1|CX101880
EST:     TCTGACGACTCGGATGCATGCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTT
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTT
EST: gi|38473104|gb|CF957236.1|CF957236
EST:     TCTGACGACTCGGATGCATGCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|29646229|gb|CB651236.1|CB651236
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88729066|gb|CI752576.1|CI752576
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88734602|gb|CI758110.1|CI758110
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88735112|gb|CI758620.1|CI758620
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88426412|gb|CI576654.1|CI576654
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88301197|gb|CI594723.1|CI594723
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88456124|gb|CI567690.1|CI567690
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88371271|gb|CI600119.1|CI600119
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
EST: gi|88371465|gb|CI602643.1|CI602643
EST:     TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAG                         GCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA
genomic: TCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaat ... cctttgacagGCAACTCGATCGGAATTTGAGTTTGGTGAACTCTGTAATTGATTCCCTGCA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTACAAAGCAAGGAACCCTCCTACCGCGTCGCTGAGCTGATGAAGGAGCTCTGACGACTCGGATGCATTCTTCTGCCATCAATCAATTGATCCAACAAGgtattgaaatagtattccatttataagttctttctttttctcaagaaaaaaaaaccctacaattttatctgtggccttgcagttcttgtatgtggtatag

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