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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaaattcaaccaaaaaacctctctctccctctatctgtcgcaatttgttgttgcttctttacttatcattttgctctttggttactattagGAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG

Basic information

species Arabidopsis thaliana
transcript AT1G55960.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55960.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0054g01590.t01 (Vitis vinifera), 3'ss of exon 3
---gt-caaattcaaccaaaaaacctctctctccctctatctgtcgcaatttgttgttgcttctttacttatcattttgctctt---tggttactattagGAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG
   ||  ||| |   |     | |   | | |      | |  ||   |  | || |  ||  |  |||||  |||||| |  |   ||   || ||||||||||||| ||   | ||| | ||| ||||| ||  ||||||||||| |||| ||||||||| ||||||||||||||| |||
caagtataaacttttctttccagctgttattttttgtgacccttctggaagttttatctctcttagacttacgattttgtttgtcaatgaccacaattagGAATGTGAACATCCTTTGGCATCACGACAGAAGAGATATGTACGTGTTAGTTTCTTTAGATCAGGTTGGCGAATCAGGAAAG
















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|125225145|gb|EL239230.1|EL239230
EST:     CTTGGAGATTGTGGCAAGGAAAGGAGAAGAAGTTCTACTGTTTCACAAAG                         GAATGTGATCACAATA
genomic: CTTGGAGATTGTGGCAAGGAAAGGAGAAGAAGTTCTACTGTTTCACAAAGgtcaaattca ... ttactattagGAATGTGATCACAATA
EST: gi|47828193|gb|CK117877.1|CK117877
EST:     CTTGGAGATTGTGGCAAGGAAAGGACAAGAAGTTCTACTGTTTCACAAAG                         GAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGT
genomic: CTTGGAGATTGTGGCAAGGAAAGGAGAAGAAGTTCTACTGTTTCACAAAGgtcaaattca ... ttactattagGAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGT
EST: gi|124863032|gb|EH947469.1|EH947469
EST:     CTTGGAGATTGTGGCAAGGAAAGGAGAAGAAGTTCTACTGTTTCACAAGG                         GAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGT
genomic: CTTGGAGATTGTGGCAAGGAAAGGAGAAGAAGTTCTACTGTTTCACAAAGgtcaaattca ... ttactattagGAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcgcaatttgttgttgcttctttacttatcattttgctctttggttactattagGAATGTGATCACAATATGGTACCACAACAGAGGAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG
                     tttacttatcatttt  TA-rich tract