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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACCATTAGCTTTTGTTTTGGTAACCAGTGCTTGGCACTATAAGTAGTATCCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgctctacttgcttgatgttcttcttccccttccttgtgtgtttatgtgtttaattgggagtttggatctcttctcatcctcagcagaatctga...

Basic information

species Oryza sativa
transcript LOC_Os12g31850.1
intron # 1
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|86826242|gb|CI311080.1|CI311080
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGGAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACTAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|571651|gb|D41162.1|D41162
EST:     CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|33663043|gb|CF294010.1|CF294010
EST:     CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|570022|gb|D40871.1|D40871
EST:     CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86826073|gb|CI310964.1|CI310964
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88372698|gb|CI612626.1|CI612626
EST:     GTGCCACTTCTTTTGGTTTCATGCCAAAAG                         GTTTTTGAATGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAATGAGG
genomic: GTGCCACTTC-TTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAA-GGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGG
EST: gi|86888337|gb|CI303619.1|CI303619
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|87017707|gb|CI289840.1|CI289840
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86904085|gb|CI304519.1|CI304519
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86888374|gb|CI303656.1|CI303656
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88736973|gb|CI760481.1|CI760481
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86891687|gb|CI309971.1|CI309971
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|87004914|gb|CI308790.1|CI308790
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86905004|gb|CI289151.1|CI289151
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86900768|gb|CI302185.1|CI302185
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88717706|gb|CI741216.1|CI741216
EST:     CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88308904|gb|CI654187.1|CI654187
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88443662|gb|CI591887.1|CI591887
EST:     TGTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: TGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86909428|gb|CI304662.1|CI304662
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88370348|gb|CI587738.1|CI587738
EST:     CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88765956|gb|CI775046.1|CI775046
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88724600|gb|CI747859.1|CI747859
EST:     CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: CCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|88826059|gb|CI776624.1|CI776624
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC
EST: gi|86888306|gb|CI301998.1|CI301998
EST:     GTGCCACTTCTTTGGTTTCATGCCAAAAG                         GTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTTTCCATCAGACAAGGAGGC
genomic: GTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgct ... tttttgtcagGTTTTTGAAGGCCCCCTTGTGAATTCCCTGTTGTCCATCAGACAAGGAGGC

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACCATTAGCTTTTGTTTTGGTAACCAGTGCTTGGCACTATAAGTAGTATCCATGGACCATGTCCTTGGTTGTGCCACTTCTTTGGTTTCATGCCAAAAGgtactctgctctacttgcttgatgttcttcttccccttccttgtgtgtttatgtgtttaattgggagtttggatctcttctcatcctcagcagaatctga

- - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
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