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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGCAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaaaaaaactctctctcttgtatatcacaatccagaccatgttctacatagaatccctcagtcaacatttctgtgtgtgtattgtttag

Basic information

species Arabidopsis thaliana
transcript AT4G39460.1
intron # 7
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|86037549|gb|DR333304.1|DR333304
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
EST: gi|86037535|gb|DR333290.1|DR333290
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAAGCAA-GA-TGCAGACCGGACAGTTTACATCAGCTCCCAGTGC
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAA-GCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGC
EST: gi|152038462|gb|AV823633.2|AV823633
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
EST: gi|86037538|gb|DR333293.1|DR333293
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACAKCAGCTCCCAGTGCT
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
EST: gi|86037548|gb|DR333303.1|DR333303
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
EST: gi|86037534|gb|DR333289.1|DR333289
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
EST: gi|86037555|gb|DR333310.1|DR333310
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
EST: gi|125286630|gb|EL300715.1|EL300715
EST:     TCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTG
genomic: TCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTG
EST: gi|86037540|gb|DR333295.1|DR333295
EST:     CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
genomic: CAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTGCT
EST: gi|124969155|gb|EL043077.1|EL043077
EST:     CTTGCTGCATCTCTGATTCGAGTGCCTACAGAG                         GTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTG
genomic: CTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaa ... tattgtttagGTTGTGAAGCAAAGAATGCAGACCGGACAGTTTACATCAGCTCCCAGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTGCAGGGGCCATCGGTGGACTTGCTGCATCTCTGATTCGAGTGCCTACAGAGgtaaaaaaaaaaaaactctctctcttgtatatcacaatccagaccatgttctacatagaatccctcagtcaacatttctgtgtgtgtattgtttag

- - - - - - -  GGTGGA
- - - - - - - - - - -  TGCTGC