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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGTCTCTTCAAACCTCTCACTCGGTGATCGACAACTCGTTGCACATTTTCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattctatccttttattagtaaccaattctatattcaaaatacataacagtcctcattcctcaattgtctaagtagttcagtttctgcatggttg...

Basic information

species Arabidopsis thaliana
transcript AT2G39990.1
intron # 3
splice site 5'
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|116465239|gb|EG507831.1|EG507831
EST:     TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGAT                         TCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
genomic: TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattc ... tgatccacagTCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
EST: gi|125281947|gb|EL296032.1|EL296032
EST:     TCCGCATGGTTGATGCTGAGAGAGTCGGAT                         TCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAAATGACTTGGAA
genomic: TCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattc ... tgatccacagTCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAA-TGACTTGGAA
EST: gi|125287430|gb|EL301515.1|EL301515
EST:     TTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGAT                         TCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
genomic: TTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattc ... tgatccacagTCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
EST: gi|163977560|gb|ES028526.1|ES028526
EST:     CAAGAGATTCCTGTTGATCTTCCGCATGGTTGATGCTGAGAGAGTCGGAT                         TCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAA
genomic: CAAGAGATTCCTGTTGATC-TCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattc ... tgatccacagTCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAA
EST: gi|116476016|gb|EG518608.1|EG518608
EST:     TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGAT                         TCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
genomic: TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattc ... tgatccacagTCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
EST: gi|116465250|gb|EG507842.1|EG507842
EST:     TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGAT                         TCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
genomic: TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattc ... tgatccacagTCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAATGACTTGGAAG
EST: gi|164185080|gb|ES009618.1|ES009618
EST:     TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGAT                         TCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAA
genomic: TCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattc ... tgatccacagTCGATGTACTTAAGGCAACATCTGTTGACAAACTCCCAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGTCTCTTCAAACCTCTCACTCGGTGATCGACAACTCGTTGCACATTTTCAAGAGATTCCTGTTGATCTCCGCATGGTTGATGCTGAGAGAGTCGGATgtgagtattctatccttttattagtaaccaattctatattcaaaatacataacagtcctcattcctcaattgtctaagtagttcagtttctgcatggttg

- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acataaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcattc