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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatattaaatcctttgattgtttgagaatcataattttacgagaagtatatatttaatttttgttcattgtcaaatatgcagTTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGGTTTAACTAATGACGAAGTTAAAAGTCATTTACAG

Basic information

species Arabidopsis thaliana
transcript AT1G25550.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25550.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G21900.1 (Glycine max), 3'ss of exon 3
------------gtaaatatattaaatcctttgattgtttgagaat-cataatt----ttacgagaagtatatatttaatttttgttcattgtcaaata-----tgcagTTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGGTTTAACTAATGACGAAGTTAAAAGTCATTTACAG
            || ||| |    ||     |   || |  | | |    ||||    ||   |    | | | |  ||| |||| |  |||  |  |      || || ||| |||||||| ||||| || || || |||||||| |||||  |||| ||||| ||||| |||||||||||||||
gtgagtatcttagttaatttgcacaagttgctatgtgctctaaattatgcaattgaaattggaaccgctttgtgtcaaatgtttgatgtttggtatttggtgtttgtagCTGCCACGCCTAAACAGATCAGGGAGCTGATGAAGGTTGATGGCCTAACCAATGATGAAGTCAAAAGTCATTTACAG

upper sequence: AT1G25550.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv01s0011g03110.t01 (Vitis vinifera), 3'ss of exon 3
------------------------gtaaatata-ttaaatcctttga-------ttgtttgagaatcataattttacgagaagtatatatttaatttttgttcattgtcaaatatgcagTTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGGTTTAACTAATGACGAAGTTAAAAGTCATTTACAG
                        || | | || ||||||  ||| |       ||   | | |||   | |     ||     || |  || |||||| |||  | |      |||||||||||| || |||||||| || || || |||||||| |||||  | |||||||| ||||| ||||| |||||||||
gtgtgtatatacttggagacaattgtgattctagttaaatttttttaacataatttccctcaaaatgggattgaattgaattaaatttgattgattttt-ttccctttttttcctgcagTTGCTACCCCAAAGCAGATCAGGGAACTGATGAAGGTTGATGGGCTTACTAATGATGAAGTCAAAAGCCATTTACAG
















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|124718877|gb|EH810279.1|EH810279
EST:     GTTACACCGCAGATTCTTGCACGCGCTTCAACAACTTGGTGGATCACATG                         TTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGG
genomic: GTTACACCGCAGATTCTTGCACGCGCTTCAACAACTTGGTGGATCACATGgtaaatatat ... aaatatgcagTTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcataattttacgagaagtatatatttaatttttgttcattgtcaaatatgcagTTGCTACGCCTAAGCAGATTAGAGATCTTATGAAGGTCGATGGTTTAACTAATGACGAAGTTAAAAGTCATTTACAG
                        atttaat  putative branch site (score: 4)
                aagtatatatttaatt  TA-rich tract