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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtttcttgccagccaagtaaaccaaaattcttctctctgcttctttctttgttttcatggcggacatattatatgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGCTTCGTCAAATGCAAAACAAAAGAGGGCGTGAAACAGAATATTGTAAATA

Basic information

species Arabidopsis thaliana
transcript AT5G23270.1
intron # 1
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|86071358|gb|DR367115.1|DR367115
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071363|gb|DR367120.1|DR367120
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071371|gb|DR367128.1|DR367128
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071373|gb|DR367130.1|DR367130
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071379|gb|DR367136.1|DR367136
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071366|gb|DR367123.1|DR367123
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071370|gb|DR367127.1|DR367127
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071364|gb|DR367121.1|DR367121
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071376|gb|DR367133.1|DR367133
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071375|gb|DR367132.1|DR367132
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071381|gb|DR367138.1|DR367138
EST:     GTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: GTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATT-GGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
EST: gi|86071361|gb|DR367118.1|DR367118
EST:     TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAG                         GAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC
genomic: TGTAGCTGCAATGGGTGGTCTCCTCTTTGGTTACGACATTGGTATCTCAGgtttgtttct ... atgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttctctctgcttctttctttgttttcatggcggacatattatatgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGCTTCGTCAAATGCAAAACAAAAGAGGGCGTGAAACAGAATATTGTAAATA
                                              tgttttc  CT-rich tract
                                    acatattatatgtttt  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtttcttgccagccaagtaaaccaaaattcttctctctgcttctttctttgttttcatggcggacatattatatgttttcagGAGGAGTGATATCAATGGAGGACTTTCTAACGAAATTCTTCCCTGACGTGCTTCGTCAAATGCAAAACAAAAGAGGGCGTGAAACAGAATATTGTAAATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG