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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttcttctcttcatttccatttgatagttgcctagattcgcttttgtcaagtcagaattcgagtacgatctgtgtctttgtctgttgtttctgtgttgatccactgattgatttgtggttgatagaattctctgggtttaggataatgtaaagtttgtattgtgattctgatacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCTGCTTCTTCGTTGGAAGAAGTTAAAAAGGCTATTCAAGATGTTTTCCCTA

Basic information

species Arabidopsis thaliana
transcript AT2G20420.1
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|86045994|gb|DR341749.1|DR341749
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|116411794|gb|EG454386.1|EG454386
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|116476127|gb|EG518719.1|EG518719
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|152035908|gb|BP864425.2|BP864425
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCCTGAATTGATGGGGAAATATGGAGT-AATGTGCCGAAAGGAGTAGC
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGC-TGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGC
EST: gi|86046006|gb|DR341761.1|DR341761
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045986|gb|DR341741.1|DR341741
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|164149830|gb|ES034760.1|ES034760
EST:     GCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045996|gb|DR341751.1|DR341751
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045998|gb|DR341753.1|DR341753
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86046004|gb|DR341759.1|DR341759
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAG-AGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86046000|gb|DR341755.1|DR341755
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86046001|gb|DR341756.1|DR341756
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86046003|gb|DR341758.1|DR341758
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86046005|gb|DR341760.1|DR341760
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045999|gb|DR341754.1|DR341754
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045983|gb|DR341738.1|DR341738
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045988|gb|DR341743.1|DR341743
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|152034140|gb|BP868525.2|BP868525
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCC
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGC-
EST: gi|86045992|gb|DR341747.1|DR341747
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045982|gb|DR341737.1|DR341737
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGNCTCAACATCCACGANTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTANCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045991|gb|DR341746.1|DR341746
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045985|gb|DR341740.1|DR341740
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|152035934|gb|BP865151.2|BP865151
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGC-GAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045993|gb|DR341748.1|DR341748
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGKGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86046002|gb|DR341757.1|DR341757
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045984|gb|DR341739.1|DR341739
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045989|gb|DR341744.1|DR341744
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045990|gb|DR341745.1|DR341745
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCCGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|116485864|gb|EG528456.1|EG528456
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
EST: gi|86045995|gb|DR341750.1|DR341750
EST:     GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAG                         GGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT
genomic: GGAAATGGCAGAACCAACAGCTTCGTCGTCTCAACATCCACGAGTATCAGgttcttcttc ... atacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattctctgggtttaggataatgtaaagtttgtattgtgattctgatacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCTGCTTCTTCGTTGGAAGAAGTTAAAAAGGCTATTCAAGATGTTTTCCCTA
                                        ttctgat  putative branch site (score: 3)
                 ataatgtaaagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcttcttctcttcatttccatttgatagttgcctagattcgcttttgtcaagtcagaattcgagtacgatctgtgtctttgtctgttgtttctgtgttgatccactgattgatttgtggttgatagaattctctgggtttaggataatgtaaagtttgtattgtgattctgatacaaccagGGAGCTGAATTGATGGGGAAATATGGAGTTAATGTGCCGAAAGGAGTAGCTGCTTCTTCGTTGGAAGAAGTTAAAAAGGCTATTCAAGATGTTTTCCCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG