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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCGATCTGCTCGGACCTGTAGAGGAAACATTTTTTGACATCTATGACCGATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcagcaaatcagcaatttctctactcggccacactgcagtattgttgatgagcaccttcggttcttacag

Basic information

species Oryza sativa
transcript LOC_Os03g16900.1
intron # 11
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|86602820|gb|CI357184.1|CI357184
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|8856777|gb|AU094095.1|AU094095
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|10109151|gb|AU063867.2|AU063867
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|88258259|gb|CI360845.1|CI360845
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|33693913|gb|CF322152.1|CF322152
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|89197962|gb|CI117440.1|CI117440
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|88254220|gb|CI352846.1|CI352846
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|87026816|gb|CI259469.1|CI259469
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|87026825|gb|CI259478.1|CI259478
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|88259855|gb|CI364346.1|CI364346
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|86879928|gb|CI339995.1|CI339995
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCA-TTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|11564810|gb|AU165446.1|AU165446
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|3761371|gb|C98619.1|C98619
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|89187975|gb|CI115224.1|CI115224
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|88996545|gb|CI260049.1|CI260049
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|33693914|gb|CF322153.1|CF322153
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
EST: gi|86839705|gb|CI343639.1|CI343639
EST:     GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAAT                         AGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA
genomic: GATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 69 (upstream exon), 44 (downstream exon)
Score: 10

GATCGATCTGCTCGGACCTGTAGAGGAAACATTTTTTGACATCTATGACCGATACGAACCTACTAATACCGCTGACGAGGACAACTGCTTCGTGACAAATgtaagttcag ... gttcttacagAGTTACGATGCAACTACTCATTTTGAGACAACGGTGAAGGATGTGCTTGCATTGTACAGCAAGATCACTGGGAAG




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