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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtaccttagcctaataatgcttcttctgtattcaactttgaatggtttctaatgtatttgatttttttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATTAGCTTTAGCTGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTT

Basic information

species Arabidopsis thaliana
transcript AT2G38330.1
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|86064741|gb|DR360498.1|DR360498
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGNCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
EST: gi|86064735|gb|DR360492.1|DR360492
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
EST: gi|86064736|gb|DR360493.1|DR360493
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
EST: gi|19876049|gb|AU236880.1|AU236880
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
EST: gi|86064739|gb|DR360496.1|DR360496
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
EST: gi|86064738|gb|DR360495.1|DR360495
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
EST: gi|86064742|gb|DR360499.1|DR360499
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
EST: gi|86064740|gb|DR360497.1|DR360497
EST:     CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGG                         GATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT
genomic: CCTCTGACTTCACAGAATAAACCGGATCATGATCACAAACCGGATCCTGGgttcgtacct ... ttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttctgtattcaactttgaatggtttctaatgtatttgatttttttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATTAGCTTTAGCTGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTT
                                        ttttttt  CT-rich tract
                        tttctaatgtatttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgtaccttagcctaataatgcttcttctgtattcaactttgaatggtttctaatgtatttgatttttttgggtttagGATTGGTAAAATTGGAATGGAGATAATGTCAATTGCATTACCTGCTGCATTAGCTTTAGCTGCTGATCCTATAACATCTCTTGTCGACACTGCCTTCGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT