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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataattaatttatttgtgattaaatgcaaccctaaacccatctttgatcaataattattcaatcaataatgtcgtcttatatcattttagtaatatggtccttaaaaaattacatgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACATAAAGAACCATTGGAACTCATGCCTTAAGAAAAGACTTGCTAAAAAAGGAATC

Basic information

species Arabidopsis thaliana
transcript AT1G74430.1
intron # 2
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|86040377|gb|DR336132.1|DR336132
EST:     CCTCAGGAGGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAG                         GTGGGCAGCAATAGCTAAGCAAATGCCA
genomic: CCTCAGGAAGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAGgtatataatt ... tgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCA
EST: gi|164153982|gb|ES080578.1|ES080578
EST:     CCTCAGGAGGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAG                         GTGGGCAGCAATAGCTAAGCAAA
genomic: CCTCAGGAAGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAGgtatataatt ... tgattacaagGTGGGCAGCAATAGCTAAGCAAA
EST: gi|86040380|gb|DR336135.1|DR336135
EST:     CCTCAGGAGGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAG                         GTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGACAATGACATAAA
genomic: CCTCAGGAAGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAGgtatataatt ... tgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACATAAA
EST: gi|86040374|gb|DR336129.1|DR336129
EST:     CCTCAGGAGGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAG                         GTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGACAATGACATAAA
genomic: CCTCAGGAAGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAGgtatataatt ... tgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACATAAA
EST: gi|86040373|gb|DR336128.1|DR336128
EST:     CCTCAGGAGGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAG                         GTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGACAATGACCTAAA
genomic: CCTCAGGAAGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAGgtatataatt ... tgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACATAAA
EST: gi|86040376|gb|DR336131.1|DR336131
EST:     CCTCAGGAGGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAG                         GTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGACAATGACATAAA
genomic: CCTCAGGAAGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAGgtatataatt ... tgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACATAAA
EST: gi|86040372|gb|DR336127.1|DR336127
EST:     CCTCAGGAGGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAG                         GTGGGCAGCAATAGCTAAGCAAATGCCAAACAGA-CAGACAATGACA
genomic: CCTCAGGAAGAAGAAGAAATCATCAAATACCATGCTCTTCTTGGAAACAGgtatataatt ... tgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcgtcttatatcattttagtaatatggtccttaaaaaattacatgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACATAAAGAACCATTGGAACTCATGCCTTAAGAAAAGACTTGCTAAAAAAGGAATC
     tcttatatcattttag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatataattaatttatttgtgattaaatgcaaccctaaacccatctttgatcaataattattcaatcaataatgtcgtcttatatcattttagtaatatggtccttaaaaaattacatgattacaagGTGGGCAGCAATAGCTAAGCAAATGCCAAACAGAACAGATAATGACATAAAGAACCATTGGAACTCATGCCTTAAGAAAAGACTTGCTAAAAAAGGAATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA