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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagatttacattaaatgtcttctgtttcactcctctgatatgtgaaacttgaaattttacctttgtggtgtcattagtaatttttgtgtggatgaaaagttaaaatgtgtgattgaatcattagGAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTGGAATTGATTCATCTGGTGGATTTGATCCTTCTCTTGATGCACTACTTGC

Basic information

species Arabidopsis thaliana
transcript AT2G35260.1
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|116414687|gb|EG457279.1|EG457279
EST:     TTACTTATGGAATCG                         GAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTG
genomic: TTACTTATGGAATCGgtgagtagat ... gaatcattagGAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTG
EST: gi|125096526|gb|EL153297.1|EL153297
EST:     AAAATCGGCGCCGTCGTTAGACTTACTTATGGAATCG                         GAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGAC
genomic: AAAATCGGCGCCGTCGTTAGACTTACTTATGGAATCGgtgagtagat ... gaatcattagGAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGAC
EST: gi|124831468|gb|EH915907.1|EH915907
EST:     TCCGATCTGGGACAAAATCGGCGCCGTCGTTAGACTTACTTATGGAATCG                         GAATATATGGAGCAATGGCTGT
genomic: TCCGATCTGGGACAAAATCGGCGCCGTCGTTAGACTTACTTATGGAATCGgtgagtagat ... gaatcattagGAATATATGGAGCAATGGCTGT
EST: gi|116414695|gb|EG457287.1|EG457287
EST:     AATCGGCGCCGTCGTTAGACTTACTTATGGAATCG                         GAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTG
genomic: AATCGGCGCCGTCGTTAGACTTACTTATGGAATCGgtgagtagat ... gaatcattagGAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTG
EST: gi|125151849|gb|EL183792.1|EL183792
EST:     CTTATGGAATCG                         GAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTG
genomic: CTTATGGAATCGgtgagtagat ... gaatcattagGAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcattagtaatttttgtgtggatgaaaagttaaaatgtgtgattgaatcattagGAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTGGAATTGATTCATCTGGTGGATTTGATCCTTCTCTTGATGCACTACTTGC
                      atgaaaagttaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtagatttacattaaatgtcttctgtttcactcctctgatatgtgaaacttgaaattttacctttgtggtgtcattagtaatttttgtgtggatgaaaagttaaaatgtgtgattgaatcattagGAATATATGGAGCAATGGCTGTAGCAGGAAGATTTATATGTTCAGTGACTGGAATTGATTCATCTGGTGGATTTGATCCTTCTCTTGATGCACTACTTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA