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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagcactttcaagatggctgattggtttgttatgagaaaataccttctaactgtaggttttgacattatttatcttgtgacttagttctaacga...

Basic information

species Oryza sativa
transcript LOC_Os02g07210.3
intron # 7
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|86838295|gb|CI327687.1|CI327687
EST:     GAGATCATGTTACCTTACAAGCGGCTGCAGACCGG                         TTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
genomic: GAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattagTTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
EST: gi|89196459|gb|CI399045.1|CI399045
EST:     CTGCAGACCGG                         TTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
genomic: CTGCAGACCGGgtaacatagc ... gttaaattagTTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
EST: gi|88516026|gb|CI443680.1|CI443680
EST:     ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGG                         T
genomic: ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattag-
EST: gi|88516026|gb|CI443680.1|CI443680
EST:     ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGG                         T
genomic: ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattag-
EST: gi|88276608|gb|CI397410.1|CI397410
EST:     GATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGG                         TTTTCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
genomic: GATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattagTTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
EST: gi|8858531|gb|AU095849.1|AU095849
EST:     ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGG                         TTTGCTTGCCAAGATTTGCCTGCTGACATCATTTTAGAGANCACATGCCTA
genomic: ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattagTTTGC-TGCCAAGATTTGCCTGCTGACATCA-TTTAGAGA-CACATGCCTA
EST: gi|157651555|gb|EX451189.1|EX451189
EST:     ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGG                         TTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
genomic: ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattagTTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
EST: gi|88907452|gb|CI090246.1|CI090246
EST:     ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGG                         TTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
genomic: ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattagTTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
EST: gi|88451001|gb|CI531596.1|CI531596
EST:     ATCATGTGACCTTACAAGCGGCTGCAGACCGG                         TTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
genomic: ATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattagTTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
EST: gi|33683116|gb|CF311355.1|CF311355
EST:     ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGG                         TTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC
genomic: ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagc ... gttaaattagTTTGCTGCCAAGATTTGCCTGCTGACATCATTTAGAGACACATGCCTAATC

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCTGGAGAATGGGGAGATCATGTGACCTTACAAGCGGCTGCAGACCGGgtaacatagcactttcaagatggctgattggtttgttatgagaaaataccttctaactgtaggttttgacattatttatcttgtgacttagttctaacga

-  TGGAGA
- - GGAGAA
- - - - - -  GGAGAT
- - - - - - - GAGATC
- - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - CTGCAG