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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactcttgtttttcatatccgatctgtctaaatgagaaataatcttacacatcgttacacctttgctgctatcag

Basic information

species Oryza sativa
transcript LOC_Os05g49200.1
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|33795396|gb|CF323568.1|CF323568
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|29687282|gb|CB683557.1|CB683557
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|58668482|gb|CK057168.1|CK057168
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|33683538|gb|CF311777.1|CF311777
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|58596651|gb|CK007179.1|CK007179
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|125863426|gb|EL586708.1|EL586708
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|29675128|gb|CB671403.1|CB671403
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|117249803|gb|CT863399.1|CT863399
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|58658759|gb|CK047439.1|CK047439
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAACGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|86908029|gb|CI298797.1|CI298797
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|29637768|gb|CB642777.1|CB642777
EST:     GCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: GCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|58668099|gb|CK056785.1|CK056785
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|29657722|gb|CB653997.1|CB653997
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTAT
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTAT
EST: gi|29660989|gb|CB657264.1|CB657264
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|29627821|gb|CB632832.1|CB632832
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|55827430|gb|AU030192.2|AU030192
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|218478948|gb|FG952780.1|FG952780
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|218480608|gb|FG959514.1|FG959514
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|58681561|gb|CK070248.1|CK070248
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|29644200|gb|CB649207.1|CB649207
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|218495569|gb|FG950148.1|FG950148
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|88396547|gb|CI601030.1|CI601030
EST:     TTTGAGATGGGCGATGTCCTGATTGGGGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|86847366|gb|CI286963.1|CI286963
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|33381232|gb|CF196575.1|CF196575
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|58599924|gb|CK010452.1|CK010452
EST:     GGCAGTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATNAGCAGACTCTGGAACATCATTG
genomic: GGCAGTTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTAT-AGCAGACTCTGGAACATCATTG
EST: gi|218481767|gb|FG945139.1|FG945139
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|218486960|gb|FG945468.1|FG945468
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|218484121|gb|FG947440.1|FG947440
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|29639939|gb|CB644948.1|CB644948
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
EST: gi|428757|gb|D24912.1|D24912
EST:     TTTGAGATGGGCGATGTCCTNATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCT
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCT
EST: gi|66924030|gb|CX110878.1|CX110878
EST:     TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAG                         GATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC
genomic: TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactc ... ctgctatcagGATTTTGTGCTAGCGGTTGTTCAGCTATAGCAGACTCTGGAACATCATTGC

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGAGATGGGCGATGTCCTGATTGGAGGAAAGACCACAGgtactgactcttgtttttcatatccgatctgtctaaatgagaaataatcttacacatcgttacacctttgctgctatcag

-  GAGATG
- - - - - - - - - - - TTGGAG
- - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - GGAGGA