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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGATGGAACTACCTCTGTTGTTGTCTTGGCCGGCGAGCTTCTGAGGGAAGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAGgtacacttttggagctttaagtgttaagatgtcaactttgtatcagcttctctcactatggcaatgatttctaattttttcgttttctggtttcttag

Basic information

species Arabidopsis thaliana
transcript AT5G20890.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G20890.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g48290.3 (Oryza sativa), 5'ss of exon 4
GGTGATGGAACTACCTCTGTTGTTGTCTTGGCCGGCGAGCTTCTGAGGGAAGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAGgtacacttttggagc-tttaagtgttaagatgtcaa--ctttgtatcagcttctctca-ctatggcaatgatttctaattttttcgttttctggtttcttag
|||||||||||||| ||||||||||| ||||| || |||||| |||||||||| |||||| | ||   |   ||||| || || ||||| ||||| ||||||| | ||  |       | |     |  ||    |  |   ||||   ||  |  ||  ||   || | ||   ||||       |  | ||  ||||   
GGTGATGGAACTACTTCTGTTGTTGTTTTGGCTGGTGAGCTTTTGAGGGAAGCTGAAAAGTTGGTAAATATGAAGATACATCCAATGACAATCATTGCAGgtatatttcagttctacatgatcaccagtatactgatgccacgtatttactgttgacaattagaccactcatgcttaatcggagtttaatttgtcttctc--

upper sequence: AT5G20890.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G19220.1 (Glycine max), 5'ss of exon 6
GGTGATGGAACTACCTCTGTTGTTGTCTTGGCCGGCGAGCTTCTGAGGGAAGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAGgtacacttttggagctttaagtgttaagatgtcaactttgtatca-gcttctctcactatggcaatg-atttctaattttttcgttttctggtttcttag-
|| |||||||||||||| |||||||| ||||| || || ||| | ||||| ||||||||||| || ||  | |||||||| |||||||| || ||| ||||| || || |     ||| |    |       |  |  | ||| | ||   | |   | ||       ||    || ||||    ||||   ||| ||   
GGGGATGGAACTACCTCAGTTGTTGTATTGGCTGGTGAACTTTTAAGGGAGGCAGAAAAGCTGGTTGCAGCCAAGATTCATCCTATGACAATAATATCAGgttcatttctttgtttttcatcaatggtccaactgccct-tatgatgcaaattttgttgtgttttcatatcgacaaattttctactttcaactttattgat

upper sequence: AT5G20890.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G09250.1 (Glycine max), 5'ss of exon 6
GGTGATGGAACTACCTCTGTTGTTGTCTTGGCCGGCGAGCTTCTGAGGGAAGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAGgtacactt-ttggagctttaagtgttaagatgtcaactttgtatcagcttctctcactatggcaatgatttctaattttttcgttttctggtttcttag--
|| |||||||||||||| |||||||| ||||| || || ||| | ||||| ||||||||||| || ||  | |||||||| || ||||| || ||| ||||| || || || |   || || || |   |   |   | ||   ||  || | |   | |     | |||  ||| ||||     | |   ||| ||    
GGGGATGGAACTACCTCAGTTGTTGTGTTGGCTGGTGAACTTTTAAGGGAGGCAGAAAAGCTGGTTGCAACCAAGATTCATCCGATGACAATAATATCAGgttcatttctttgtttttcaaatggtccaactgctcttatgatgcaaattttgttggtgttttctt-attgataaattttctaactgcaactttattgatt

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|124905081|gb|EH979161.1|EH979161
EST:     AGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAG                         GTTACAGAATGG
genomic: AGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAGgtacactttt ... ggtttcttagGTTACAGAATGG
EST: gi|125204057|gb|EL219011.1|EL219011
EST:     CTTCTAAGATTCACCCTATGACCATCATAGCAG                         GTTACAGAATGGCTTCGGAATGTGCTCGTAATGCTTTACTGAAAAGAGTCA
genomic: CTTCTAAGATTCACCCTATGACCATCATAGCAGgtacactttt ... ggtttcttagGTTACAGAATGGCTTCGGAATGTGCTCGTAATGCTTTACTGAAAAGAGTCA
EST: gi|116444514|gb|EG487106.1|EG487106
EST:     AGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAG                         GTTACAGAATGGCTTCGGAATGTGCTCGTAATGCTTTACTGAAAAGAGTCA
genomic: AGCAGAAAAGCTTGTGGCTTCTAAGATTCACCCTATGACCATCATAGCAGgtacactttt ... ggtttcttagGTTACAGAATGGCTTCGGAATGTGCTCGTAATGCTTTACTGAAAAGAGTCA