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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcactattcttcatcttcttcactggattggtatctctcgtctttagcttaatctgagctgtgatcgaatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCACAGATCGGAAATTGTTCTGAGACGGAATCGGCTCTGTCTGTCAAAGAAG

Basic information

species Arabidopsis thaliana
transcript AT1G61415.1
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|116468635|gb|EG511227.1|EG511227
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468606|gb|EG511198.1|EG511198
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468631|gb|EG511223.1|EG511223
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468620|gb|EG511212.1|EG511212
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468622|gb|EG511214.1|EG511214
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468634|gb|EG511226.1|EG511226
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468621|gb|EG511213.1|EG511213
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116407140|gb|EG449732.1|EG449732
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468633|gb|EG511225.1|EG511225
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468630|gb|EG511222.1|EG511222
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116407142|gb|EG449734.1|EG449734
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468623|gb|EG511215.1|EG511215
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
EST: gi|116468632|gb|EG511224.1|EG511224
EST:     CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAG                         GTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA
genomic: CAGGTGCGATTCTATGTCAAATCTCCATTTTCAAGGACATGCTTGATCAGgtttcactat ... aatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggattggtatctctcgtctttagcttaatctgagctgtgatcgaatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCACAGATCGGAAATTGTTCTGAGACGGAATCGGCTCTGTCTGTCAAAGAAG
                        gcttaat  putative branch site (score: 4)
                          ttaatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcactattcttcatcttcttcactggattggtatctctcgtctttagcttaatctgagctgtgatcgaatgaaacagGTCAATCGGGAAATCGAAGCAAACATTCAGGTCACGCGAGAGATCGAATCACAGATCGGAAATTGTTCTGAGACGGAATCGGCTCTGTCTGTCAAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG