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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgacccttattccctgactaaagttttcaacaatgtagaaactgttgttctaaggatgatccttgtttcgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAGCGACATGCACAGACTTTATAATCTCCCTATCTGCAAAGAACTTCTCACG

Basic information

species Arabidopsis thaliana
transcript AT2G18280.1
intron # 3
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|124708400|gb|EH799802.1|EH799802
EST:     GAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTT                         CGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
genomic: GAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTTgtgagtgacc ... cgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
EST: gi|116376565|gb|EG419157.1|EG419157
EST:     GAGGAACAGAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTT                         CGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
genomic: GAGGAACAGAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTTgtgagtgacc ... cgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
EST: gi|116376569|gb|EG419161.1|EG419161
EST:     GAGGAACAGAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTT                         CGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
genomic: GAGGAACAGAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTTgtgagtgacc ... cgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
EST: gi|125194365|gb|EL209319.1|EL209319
EST:     GAGGAACAGAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTT                         CGGAGACTGAGAACGACAAACTGTTGTTAG
genomic: GAGGAACAGAGCAACAGCTACATACATTCTCTATTATGGTTTGATGCCTTgtgagtgacc ... cgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAG
EST: gi|125319398|gb|EL333483.1|EL333483
EST:     TTTGATGCCTT                         CGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
genomic: TTTGATGCCTTgtgagtgacc ... cgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
EST: gi|125261734|gb|EL275819.1|EL275819
EST:     ATTATGGTTTGATGCCTT                         CGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG
genomic: ATTATGGTTTGATGCCTTgtgagtgacc ... cgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcaacaatgtagaaactgttgttctaaggatgatccttgtttcgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAGCGACATGCACAGACTTTATAATCTCCCTATCTGCAAAGAACTTCTCACG
                                    tccttgtttc  CT-rich tract
                                               aatttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgacccttattccctgactaaagttttcaacaatgtagaaactgttgttctaaggatgatccttgtttcgaatttcagCGGAGACTGAGAACGACAAACTGTTGTTAGCAGCAAGAAGGATTAGAAGAGCGACATGCACAGACTTTATAATCTCCCTATCTGCAAAGAACTTCTCACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC