Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcaatcatcttcttcaatacttttgtctttccgtccatcggaggattctcaatacgtttcgttacaacactgttaaatctcattttcctgaatctccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG

Basic information

species Arabidopsis thaliana
transcript AT5G22440.1
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|116413764|gb|EG456356.1|EG456356
EST:     CTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
genomic: CTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|86049654|gb|DR345409.1|DR345409
EST:     GTTCTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
genomic: GTTCTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|86049657|gb|DR345412.1|DR345412
EST:     GTTCTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
genomic: GTTCTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|86049659|gb|DR345414.1|DR345414
EST:     GTTCTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGAAGTACCAAAATGAG
genomic: GTTCTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|164132764|gb|ES030797.1|ES030797
EST:     GTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
genomic: GTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|116413756|gb|EG456348.1|EG456348
EST:     CTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
genomic: CTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|86049655|gb|DR345410.1|DR345410
EST:     CTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGAAGTACCAAAATGAG
genomic: CTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|86049653|gb|DR345408.1|DR345408
EST:     CTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGAAGTACCAAAATGAG
genomic: CTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|86049652|gb|DR345407.1|DR345407
EST:     GTTCTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
genomic: GTTCTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|124920705|gb|EH994394.1|EH994394
EST:     GTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAAATGAG
genomic: GTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAA-TGAG
EST: gi|86049658|gb|DR345413.1|DR345413
EST:     CTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGAAGTACCAAAATGAG
genomic: CTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|86049656|gb|DR345411.1|DR345411
EST:     GTTCTTTCTCTGTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGAAGTACCAAAATGAG
genomic: GTTCTTTCTCTGTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
EST: gi|116439442|gb|EG482034.1|EG482034
EST:     GTTTCCGACCTTCCCACAG                         GAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
genomic: GTTTCCGACCTTCCCACAGgtaaatcaat ... ccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatacgtttcgttacaacactgttaaatctcattttcctgaatctccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG
                                          tctccgttt  CT-rich tract
                      ttaaatctcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatcaatcatcttcttcaatacttttgtctttccgtccatcggaggattctcaatacgtttcgttacaacactgttaaatctcattttcctgaatctccgtttacagGAAGCAAATTTGTTTCAGGGAGTACCAAAATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA