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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtattatttagtattaaaaaaatacatattagagtagatgtcctagactacagggtctatatatgtgtatcaaatatataatatttcctttatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAGAAGAACGCTCAGCCAAACCGAAACTCAGTCCGTGGATTCGAAGTCATTG

Basic information

species Arabidopsis thaliana
transcript AT1G49570.1
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|86061778|gb|DR357535.1|DR357535
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061776|gb|DR357533.1|DR357533
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061771|gb|DR357528.1|DR357528
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACG
EST: gi|86061777|gb|DR357534.1|DR357534
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061768|gb|DR357525.1|DR357525
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061767|gb|DR357524.1|DR357524
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061775|gb|DR357532.1|DR357532
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061773|gb|DR357530.1|DR357530
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTKCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061769|gb|DR357526.1|DR357526
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061772|gb|DR357529.1|DR357529
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061770|gb|DR357527.1|DR357527
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
EST: gi|86061774|gb|DR357531.1|DR357531
EST:     GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAAT                         GGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG
genomic: GAATCGCTGCATCTCTTCTTCGACTCCATTTCCACGATTGTTTTGTCAATgtaagtttat ... tatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactacagggtctatatatgtgtatcaaatatataatatttcctttatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAGAAGAACGCTCAGCCAAACCGAAACTCAGTCCGTGGATTCGAAGTCATTG
                                    tatttccttt  CT-rich tract
            tatatatgtgtatcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattatttagtattaaaaaaatacatattagagtagatgtcctagactacagggtctatatatgtgtatcaaatatataatatttcctttatgttgtagGGATGTGATGGATCTATACTTCTGAACGATTCAGAGGATTTCAAAGGAGAGAAGAACGCTCAGCCAAACCGAAACTCAGTCCGTGGATTCGAAGTCATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatcaaa