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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtatctttggtttttgtttgatttatgtggtgagatcacatttttggttttggatgtgttttctaattgttagctgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAAAACTCAGCTTCTTGTTTTCTCTGTGAG

Basic information

species Arabidopsis thaliana
transcript AT2G24490.1
intron # 4
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|86033708|gb|DR329461.1|DR329461
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTTCAGGGC
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTT-CAGGGC
EST: gi|86033702|gb|DR329455.1|DR329455
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
EST: gi|86033704|gb|DR329457.1|DR329457
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
EST: gi|86033703|gb|DR329456.1|DR329456
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
EST: gi|86033711|gb|DR329464.1|DR329464
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
EST: gi|86033710|gb|DR329463.1|DR329463
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
EST: gi|86033701|gb|DR329454.1|DR329454
EST:     GGTGAGTGAAACTTTCGACGCTAKAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGC-TCAGTGGTCATTTGAAGACTTTTCAGGGCAA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
EST: gi|86033707|gb|DR329460.1|DR329460
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTT
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTT
EST: gi|19877547|gb|AU238378.1|AU238378
EST:     GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAA
EST: gi|86033705|gb|DR329458.1|DR329458
EST:     GGTGAGTGAAMCTTTCGACGCTAGAGAAATGGAGTCTGTGCG                         AGATGGAACTTATGTGCGCCTCA
genomic: GGTGAGTGAAACTTTCGACGCTAGAGAAATGGAGTCTGTGCGgttagtatct ... tgtgaaacagAGATGGAACTTATGTGCGCCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgagatcacatttttggttttggatgtgttttctaattgttagctgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAAAACTCAGCTTCTTGTTTTCTCTGTGAG
                               ttctaat  putative branch site (score: 2)
                             ttttctaattgtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtatctttggtttttgtttgatttatgtggtgagatcacatttttggttttggatgtgttttctaattgttagctgtgaaacagAGATGGAACTTATGTGCGCCTCAGTGGTCATTTGAAGACTTTTCAGGGCAAAACTCAGCTTCTTGTTTTCTCTGTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT