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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGATGATCTCAAGACTGTGGTATCTTACCTGAGAAACAGCAATCAAGTATCCCGTATTGGACTTTGGGGACGATCTATGGGTGCAGTTACCAGgttacttcttgagctacttttcagtcacacttaaaagtagtattagtagttgtgttgactatagattcaccagctttctaaaggtctatgatctgaaaagtgtgtcaactctccacatttcatcttgttctctccatcatttgatgaagcgggaatataatgtgcag

Basic information

species Arabidopsis thaliana
transcript AT4G17150.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G02050.1 (Glycine max), 5'ss of exon 6
AAGGATGATCTCAAGACTGTGGTATCTTACCTGAGAAACAGCAATCAAGTATCCCGTATTGGACTTTGGGGACGATCTATGGGTGCAGTTACCAGgtt-acttcttgagctacttttcagtcacacttaaaagtagtattagtagttgtgttgactatagattcaccagctttctaaaggtctatgatctgaaaagtgtgtcaactctccacatttcatcttgttctctccatcatttgatgaagcgggaatataatgtgcag
|| |||||||||||||  ||||| ||  |  | |||| || ||| |||||||| ||||| ||||||||||||||||| |||||||| ||||| ||||| |||||||      |    ||||   | ||  || | || |||||| |  |  |  ||||| | |  | |         |  |||| ||  |  ||  |  ||                                                              
AAAGATGATCTCAAGATGGTGGTGTCACATTTAAGAAGCAACAAACAAGTATCTCGTATAGGACTTTGGGGACGATCAATGGGTGCTGTTACAAGgtttacttctt------ccaaccagtttgattttcaa-tggttttagtaataattctttctatatactt-ctattacatgttaattctaggagttataagtttggttt------------------------------------------------------------

upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G00770.1 (Glycine max), 5'ss of exon 6
AAGGATGATCTCAAGACTGTGGTATCTTACCTGAGAAACAGCAATCAAGTATCCCGTATTGGACTTTGGGGACGATCTATGGGTGCAGTTACCAGgt----tacttcttgagctacttttcagtcacacttaaaagtagtattagtagttgtgttgactatagattcaccagctttctaaaggtctatgatctgaaaagtgtgtcaactctccacatttcatcttgttctctccatcatttgatgaagcgggaatataatgtgcag
|| |||||||||||||  ||||| || ||  |||| | || ||| ||| |||| ||||| || ||||||||||||||||||||||| ||||| ||||     |  ||   |   |||| |  |  |   |      ||  | |  | | |   ||||   |  ||  |   ||| |  | |   |||  |    | |                                                                     
AAAGATGATCTCAAGATGGTGGTGTCATATTTGAGGAGCAACAAACAAATATCTCGTATAGGTCTTTGGGGACGATCTATGGGTGCTGTTACTAGgtattacatctcccaattaacttgtttgatattgtcttttatatgaatttttgctcctttgatgctttat--atttgctatgcatacccctacaaaaaaaga---------------------------------------------------------------------

upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G12950.1 (Glycine max), 5'ss of exon 4
AAGGATGATCTCAAGACTGTGGTATCTTACCTGAGAAACAGCAATCAAGTATCCCGTATTGGACTTTGGGGACGATCTATGGGTGCAGTTACCAGgtt-acttcttg-agctacttttcagtcacacttaaaagtagtattagtagttgtgttgactatagattcaccagct---ttctaaaggtctatgatctgaaaagtgtgtcaactctccacatttcatcttgttctctccatcatttgatgaagcgggaatataatgtgcag
|| || || |||||||  ||||| ||  |  | | || || ||| | |||||| | |||||| |||||||||||||| |||||||| ||||| ||||| |||||||  |  |  |   ||||   | ||  || | || |||||| |  |  |  |||||  | |  |   |   |  |||  ||  || | |  |                                                                       
AAAGACGACCTCAAGATGGTGGTGTCACATTTAAAAAGCAACAAACTAGTATCTCATATTGGTCTTTGGGGACGATCAATGGGTGCTGTTACTAGgtttacttcttctaagttttaaccagtttgattttcaa-tggttttagtaataattctttctatatgtacttctattacatgttaattgtacataaaccaa-----------------------------------------------------------------------

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|19878908|gb|AU239739.1|AU239739
EST:     AAGTATCCCGTATTGGACTTTGGGGGACGATCTATGGGTGCAGTTACCAG                         CCTTCTTTATGGAGCAG
genomic: AAGTATCCCGTATTGGACTTTGGGG-ACGATCTATGGGTGCAGTTACCAGgttacttctt ... taatgtgcagCCTTCTCTATGGAGCAG