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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattgcttatgtttactttatgtattgcaattttaagatctgagtatgattacaattgtgtttgtgatcatgacttcacttctcgataattttctggtatagcaatgccaatggagtgtatatttctgcttgataatacacttcagttgaggaaaatttgattttgactttttcattgttttcttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG

Basic information

species Arabidopsis thaliana
transcript AT3G15640.1
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|86043826|gb|DR339581.1|DR339581
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAA
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAA
EST: gi|86043848|gb|DR339603.1|DR339603
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAA
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAA-GGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAA
EST: gi|86043841|gb|DR339596.1|DR339596
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGG
EST: gi|86043813|gb|DR339568.1|DR339568
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043815|gb|DR339570.1|DR339570
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043822|gb|DR339577.1|DR339577
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043824|gb|DR339579.1|DR339579
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043831|gb|DR339586.1|DR339586
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCSCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043837|gb|DR339592.1|DR339592
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043847|gb|DR339602.1|DR339602
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043833|gb|DR339588.1|DR339588
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043834|gb|DR339589.1|DR339589
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043842|gb|DR339597.1|DR339597
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043821|gb|DR339576.1|DR339576
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTTCCCTGAAGG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTT-CCCTGAAGG
EST: gi|86043849|gb|DR339604.1|DR339604
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043832|gb|DR339587.1|DR339587
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043829|gb|DR339584.1|DR339584
EST:     TGCCCATTGCGACTGGACAC-AGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043814|gb|DR339569.1|DR339569
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043828|gb|DR339583.1|DR339583
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043817|gb|DR339572.1|DR339572
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043840|gb|DR339595.1|DR339595
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043819|gb|DR339574.1|DR339574
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043823|gb|DR339578.1|DR339578
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043836|gb|DR339591.1|DR339591
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCT
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCT
EST: gi|86043825|gb|DR339580.1|DR339580
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043845|gb|DR339600.1|DR339600
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTC
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTC
EST: gi|86043839|gb|DR339594.1|DR339594
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043827|gb|DR339582.1|DR339582
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043816|gb|DR339571.1|DR339571
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|124719598|gb|EH811000.1|EH811000
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGA
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGA
EST: gi|86043838|gb|DR339593.1|DR339593
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
EST: gi|86043844|gb|DR339599.1|DR339599
EST:     TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAG                         GGAAGGAGGCTGGATGATATTGACTT
genomic: TGCCCATTGCGACTGGACACGAGAAGGAAGAGCTTGAAGCTGAACTTGAGgtgattgctt ... cttgtgatagGGAAGGAGGCTGGATGATATTGACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acacttcagttgaggaaaatttgattttgactttttcattgttttcttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG
                        ttttgac  putative branch site (score: 3)
                              ctttttcattgttttc  CT-rich tract
               aaaatttgattttgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgattgcttatgtttactttatgtattgcaattttaagatctgagtatgattacaattgtgtttgtgatcatgacttcacttctcgataattttctggtatagcaatgccaatggagtgtatatttctgcttgataatacacttcagttgaggaaaatttgattttgactttttcattgttttcttgtgatagGGAAGGAGGCTGGATGATATTGACTTCCCTGAAGGTCCTTTTGGAACTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG