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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaatgcctgttgcaggctacatgttttacaagagaactattagtgttcaaatttaagttctgtgataagttctcaggcaatatacccaaaattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTGTGTTGATGGAACAGTTGGGGA

Basic information

species Oryza sativa
transcript LOC_Os12g04990.2
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|58590036|gb|CF988344.1|CF988344
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|88569586|gb|CI660761.1|CI660761
EST:     AATAGGTTNCCTGATAACCCACACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTACATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|29667939|gb|CB664214.1|CB664214
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|88294822|gb|CI604694.1|CI604694
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTA
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTA
EST: gi|88372758|gb|CI612686.1|CI612686
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|88288563|gb|CI663352.1|CI663352
EST:     AATAGGTTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|29626657|gb|CB631668.1|CB631668
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|29627108|gb|CB632119.1|CB632119
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|29630786|gb|CB635795.1|CB635795
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|29627343|gb|CB632354.1|CB632354
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|58605691|gb|CK033724.1|CK033724
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|29674287|gb|CB670562.1|CB670562
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|58658513|gb|CK047193.1|CK047193
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|33801569|gb|CF326656.1|CF326656
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|117224882|gb|CT845959.1|CT845959
EST:     AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
EST: gi|88356323|gb|CI652760.1|CI652760
EST:     AATAGGTTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGT                         GTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG
genomic: AATAGATTCCCTGATAACCCAGACATTGGAACGCTTCATGATAACTTTGTgtaagaatcc ... aattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcaaatttaagttctgtgataagttctcaggcaatatacccaaaattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTGTGTTGATGGAACAGTTGGGGA
     aatttaagtt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaatgcctgttgcaggctacatgttttacaagagaactattagtgttcaaatttaagttctgtgataagttctcaggcaatatacccaaaattgtgcagGTATGCAGTTGAAACCTTTAGGGACTGTAGATACCTGGGCACAAGAGTCTGTGTTGATGGAACAGTTGGGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA