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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACTGGGACGAACAAGAATACATTTCTGACCCTGAAGACAAGAAACCTGACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatacttgtctataattgatgtaaaatctaaaatctcttgctgtgttccgtatttgctgatttttcgttgtcctttctcttag

Basic information

species Arabidopsis thaliana
transcript AT1G09210.1
intron # 5
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|164095436|gb|ES203144.1|ES203144
EST:     CCCTAAGGAGATCCCAGACACCGACTCAAAGAAG                         CCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACTAGCCCCAACAAT
genomic: CCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatactt ... tttctcttagCCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACT-GCCCCAACAAT
EST: gi|164044325|gb|ES215524.1|ES215524
EST:     CGGTTACGATGATATCCCTAAGGAGATACCCAGACACCGACTCAAAGAAG                         CCTGAGGACTGGGATGA
genomic: CGGTTACGATGATATCCCTAAGGAGAT-CCCAGACACCGACTCAAAGAAGgttcatactt ... tttctcttagCCTGAGGACTGGGATGA
EST: gi|164144790|gb|ES160449.1|ES160449
EST:     CCCTAAGGAGATCCCAGACACCGACTCAAAGAAG                         CCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACTGCCCCAACAATC
genomic: CCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatactt ... tttctcttagCCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACTGCCCCAACAATC
EST: gi|116412926|gb|EG455518.1|EG455518
EST:     ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAGAGAAG                         CCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACTGCCCCAACAATC
genomic: ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatactt ... tttctcttagCCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACTGCCCCAACAATC
EST: gi|124707490|gb|EH798892.1|EH798892
EST:     ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAG                         CCTGAGGACTGGGATGATG
genomic: ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatactt ... tttctcttagCCTGAGGACTGGGATGATG
EST: gi|164233139|gb|EL973462.1|EL973462
EST:     ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAG                         CCTGAGGACTGGGATGA
genomic: ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatactt ... tttctcttagCCTGAGGACTGGGATGA
EST: gi|116412928|gb|EG455520.1|EG455520
EST:     ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAGAGAAG                         CCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACTGCCCCAACAATC
genomic: ACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatactt ... tttctcttagCCTGAGGACTGGGATGATGAAGAAGATGGTGAGTGGACTGCCCCAACAATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACTGGGACGAACAAGAATACATTTCTGACCCTGAAGACAAGAAACCTGACGGTTACGATGATATCCCTAAGGAGATCCCAGACACCGACTCAAAGAAGgttcatacttgtctataattgatgtaaaatctaaaatctcttgctgtgttccgtatttgctgatttttcgttgtcctttctcttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG