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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttgcgtggaccacagatatgaatcaatgcagtgttattcttcataaactcattggtctctattttctcagATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAGACTTGTTACTACACATCGGTTTTTGATCAATTAAACAATGATGAG

Basic information

species Arabidopsis thaliana
transcript AT1G31860.1
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|164016206|gb|EL989992.1|EL989992
EST:     GATCGTGATTCG                         ATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAG
genomic: GATCGTGATTCGgtatgtttgc ... attttctcagATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAG
EST: gi|86029619|gb|DR325372.1|DR325372
EST:     ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCG                         ATTATTTACCTTGGGAACACCTGATGGACCTA
genomic: ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCGgtatgtttgc ... attttctcagATTATTTACCTTGG-AACACCTGATGGACCTA
EST: gi|86029612|gb|DR325365.1|DR325365
EST:     ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCG                         ATTATTTACCTTG
genomic: ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCGgtatgtttgc ... attttctcagATTATTTACCTTG
EST: gi|86029611|gb|DR325364.1|DR325364
EST:     ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCG                         ATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAG
genomic: ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCGgtatgtttgc ... attttctcagATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAG
EST: gi|86029615|gb|DR325368.1|DR325368
EST:     ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCG                         ATTATTTACCTT
genomic: ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCGgtatgtttgc ... attttctcagATTATTTACCTT
EST: gi|86029616|gb|DR325369.1|DR325369
EST:     ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCG                         ATTATTTACCTTGGAACACCTGATGGACCTAC-TGTCACA
genomic: ATAACTTCATCAATATTCTTGATGTGTATGTTGATTGTGATCGTGATTCGgtatgtttgc ... attttctcagATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACA
EST: gi|86078213|gb|DR373970.1|DR373970
EST:     ATTCTTGATGTGTATGTTGATTGTGATCGTGATTCG                         ATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAG
genomic: ATTCTTGATGTGTATGTTGATTGTGATCGTGATTCGgtatgtttgc ... attttctcagATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgaatcaatgcagtgttattcttcataaactcattggtctctattttctcagATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAGACTTGTTACTACACATCGGTTTTTGATCAATTAAACAATGATGAG
                                        tctctattttctc  CT-rich tract
                  ttattcttcataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtttgcgtggaccacagatatgaatcaatgcagtgttattcttcataaactcattggtctctattttctcagATTATTTACCTTGGAACACCTGATGGACCTACCTGTCACACAGGGGAAGAGACTTGTTACTACACATCGGTTTTTGATCAATTAAACAATGATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA