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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttcttgatcgcttataaagcattaacatagcgagtctcggtctagatttggatccaagatctgaaagattttgtttctttttttgtaccttgacagATTCAAGAAAATATGAAAGCTGTTGATGTGATCCCATTGTTGACCCCTATTGTTCTGGACAAGATTGAGCAAGTGATACAGAGCAAACCAAAACGTCCTG

Basic information

species Arabidopsis thaliana
transcript AT1G04690.1
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|163991516|gb|ES074748.1|ES074748
EST:     AAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAG                         ATTCAAGAAAATATGAAAG
genomic: AAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAGgttagttctt ... accttgacagATTCAAGAAAATATGAAAG
EST: gi|86077892|gb|DR373649.1|DR373649
EST:     CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAG                         ATTCAAGAAAATATGAAAGCTGTTGATGTGATCCCATTGTTGACCCCTATT
genomic: CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAGgttagttctt ... accttgacagATTCAAGAAAATATGAAAGCTGTTGATGTGATCCCATTGTTGACCCCTATT
EST: gi|125254408|gb|EL268493.1|EL268493
EST:     CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAG                         ATTCAAGAAAATATGAAAGCTGTTGA
genomic: CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAGgttagttctt ... accttgacagATTCAAGAAAATATGAAAGCTGTTGA
EST: gi|47831309|gb|CK120993.1|CK120993
EST:     CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAG                         ATTCAAGAAAATATGAAAGCTGTTGATG
genomic: CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAGgttagttctt ... accttgacagATTCAAGAAAATATGAAAGCTGTTGATG
EST: gi|124986496|gb|EL059014.1|EL059014
EST:     CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAG                         ATTCAAGAAAATATGAAAGCTGTTGATGTGAT
genomic: CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAGgttagttctt ... accttgacagATTCAAGAAAATATGAAAGCTGTTGATGTGAT
EST: gi|116446909|gb|EG489501.1|EG489501
EST:     CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAG                         ATTCAAGAAAATATGAAAGCTGTTGATGTGATCCCATTGTTGACCCCTATT
genomic: CAAATCCTAATGTGTCATCTGTTATCACTGGTGCCACAAGGGAGTCACAGgttagttctt ... accttgacagATTCAAGAAAATATGAAAGCTGTTGATGTGATCCCATTGTTGACCCCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagatttggatccaagatctgaaagattttgtttctttttttgtaccttgacagATTCAAGAAAATATGAAAGCTGTTGATGTGATCCCATTGTTGACCCCTATTGTTCTGGACAAGATTGAGCAAGTGATACAGAGCAAACCAAAACGTCCTG
                           ttttgtttcttttttt  CT-rich tract
                      aaagattttgtttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagttcttgatcgcttataaagcattaacatagcgagtctcggtctagatttggatccaagatctgaaagattttgtttctttttttgtaccttgacagATTCAAGAAAATATGAAAGCTGTTGATGTGATCCCATTGTTGACCCCTATTGTTCTGGACAAGATTGAGCAAGTGATACAGAGCAAACCAAAACGTCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA