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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggattcacctaaaagttctagtcagtgttgtttgaataccatataaccagatattgattgatcatggtgaacacggtccttagtttcttttttcagtttctgttgtcagcattctttctacctttgatacttatctgactgatacctttgacacacttgctgcag

Basic information

species Arabidopsis thaliana
transcript AT1G55960.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55960.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv09s0054g01590.t01 (Vitis vinifera), 5'ss of exon 4
GAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggattcacctaaaagttctagtcagtgttgtttgaataccatataaccagatattgattgatcatggtgaacacggtccttagtttcttttttcagtttctgttgtcagcattctttctacctttgatacttatctgactgatacctttgacacacttgctgcag
|||||||| ||   | ||| | ||| ||||| ||  ||||||||||| |||| ||||||||| ||||||||||||||| ||||  ||||      |||     ||    ||| |  | |||      || |    | ||| ||  ||| || |  |  |    |    |  |  | ||||| |     |||                                                              
GAATGTGAACATCCTTTGGCATCACGACAGAAGAGATATGTACGTGTTAGTTTCTTTAGATCAGGTTGGCGAATCAGGAAAGgtgagtg------cctgg--tttaccttcatttgtttttttccttcaaaggggctgat-ttagttg-tcctattatatcaagcagcttttgccctttttgaagcattgta-------------------------------------------------------------
















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|125080391|gb|EL142009.1|EL142009
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGT
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGT
EST: gi|124971075|gb|EL044866.1|EL044866
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAAT
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAAT
EST: gi|125252500|gb|EL266585.1|EL266585
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGG
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGG
EST: gi|125280240|gb|EL294325.1|EL294325
EST:     TCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG
genomic: TCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG
EST: gi|47828193|gb|CK117877.1|CK117877
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG