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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttactctctctcactctcgatctgtctatctgtatcgctttgttgctcttaaagagagaatctaatttcgaaatgttgtgtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCTGGAGGTGGAAAACAGAAGAAGAAG

Basic information

species Arabidopsis thaliana
transcript AT2G21580.2
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|86036273|gb|DR332026.1|DR332026
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|125132601|gb|EL174589.1|EL174589
EST:     CTGCTCGCCGATCGTTACTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAG
genomic: CTGCTCGCCGATCGTTACTCCGTCGAAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAG
EST: gi|86036254|gb|DR332007.1|DR332007
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036287|gb|DR332040.1|DR332040
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036277|gb|DR332030.1|DR332030
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036278|gb|DR332031.1|DR332031
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036231|gb|DR331984.1|DR331984
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036238|gb|DR331991.1|DR331991
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036244|gb|DR331997.1|DR331997
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|152034092|gb|BP867368.2|BP867368
EST:     CTTTCGTCTCTTCTCTGCTCGCCGATCGTTACTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: CTTTCGTCTCTTCTCTGCTCGCCGATCGTTACTCCGTCGAAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036295|gb|DR332048.1|DR332048
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036284|gb|DR332037.1|DR332037
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036251|gb|DR332004.1|DR332004
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036226|gb|DR331979.1|DR331979
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|116414979|gb|EG457571.1|EG457571
EST:     CTTTCGTCTCTTCTCTGCTCGCCGATCGTTACTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: CTTTCGTCTCTTCTCTGCTCGCCGATCGTTACTCCGTCGAAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036270|gb|DR332023.1|DR332023
EST:     CTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAATGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: CTCCGTCGAAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036230|gb|DR331983.1|DR331983
EST:     CTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: CTCCGTCGAAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036292|gb|DR332045.1|DR332045
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036293|gb|DR332046.1|DR332046
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036228|gb|DR331981.1|DR331981
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036213|gb|DR331966.1|DR331966
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036258|gb|DR332011.1|DR332011
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036242|gb|DR331995.1|DR331995
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036282|gb|DR332035.1|DR332035
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|125170829|gb|EL194088.1|EL194088
EST:     CGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: CGTCGAAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036219|gb|DR331972.1|DR331972
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86079503|gb|DR375260.1|DR375260
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
EST: gi|86036227|gb|DR331980.1|DR331980
EST:     TCTCTTCTCTGCTCGCCGATCGTTACTCCGTCTCCGTCGAAATCACCATG                         GCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT
genomic: TCTCTTCTCTGCTCGCCGATCGTTACTCCGTC---G---AAATCACCATGgttactctct ... gtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgctttgttgctcttaaagagagaatctaatttcgaaatgttgtgtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCTGGAGGTGGAAAACAGAAGAAGAAG
                         atctaat  putative branch site (score: 3)
                                              tgttttc  putative PPT
                        aatctaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttactctctctcactctcgatctgtctatctgtatcgctttgttgctcttaaagagagaatctaatttcgaaatgttgtgtgttttcagGCGCCAAAGAAGGATAAGGTTCCACCACCGTCATCAAAGCCGGCCAAATCTGGAGGTGGAAAACAGAAGAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG