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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtattagtgaataaagtattcattgacatatcttcttccattgaaacttaggcacttactgtttcacttcttgtgtctgtagAAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTGCTGAGGTTGCTCAAGACATGGGTCTTCCAATCTCTTCCTATGTTGAT

Basic information

species Arabidopsis thaliana
transcript AT4G27640.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G27640.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA08G19960.1 (Glycine max), 3'ss of exon 15
gtgggtattagtgaataaagtattcattgaca-tatcttcttccattgaaacttaggcacttactgtt-tcacttcttgtgtctgtagAAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTGCTGAGGTTGCTCAAGACATGGGTCTTCCAATCTCTTCCTATGTTGAT
                   |  ||||    || || ||| |    ||   | | |  |||  | |  | ||    |||     || ||||| |||| |||||||| || |||||||| |||||||||||  | |||||||| ||||||||  |||||||| |||| ||  |   ||||||||||
-----------------gtgagttcacaaccaataacttttattgttaggaataaatcacaaattaatatcctcactttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTTGCTGAAGTTGCTCAGAACATGGGTTTTCCTATTGCAAGCTATGTTGAT

upper sequence: AT4G27640.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA15G05090.1 (Glycine max), 3'ss of exon 15
gtgggtattagtgaataaagtattcattgacatatcttcttccattgaaacttaggcacttactgtttcacttcttgtgtc-tgtagAAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTGCTGAGGTTGCTCAAGACATGGGTCTTCCAATCTCTTCCTATGTTGAT
                  |||   ||   | ||| ||| | |  ||   | | |  |||  | |  |   ||  || ||   || ||||| |||| |||||||| || |||||||| |||||||||||  | || ||||| ||||||||  ||||||||  ||| ||  |   ||||||||||
---------------gtgagttcgcaacca-ataacttttactgttaggaataaatcacaaattaatatcctcattttgaaatgcagAAATCTTCTCGTCCTCCTCAAGATAGGACTATGGTAGTTGCCTGCCTAGCTGAAGTTGCTCAGAACATGGGTTCTCCTATTGCAAGCTATGTTGAT
















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|125031879|gb|EL104148.1|EL104148
EST:     GTTGATGAAATTTGCG                         AAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTG
genomic: GTTGATGAAATTTGCGgtgggtatta ... gtgtctgtagAAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTG
EST: gi|125053649|gb|EL124658.1|EL124658
EST:     ATTTGAACCTGTCTTTGCCCAATTCTTTGAGCCGTTGATGAAATTTGCG                         AAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTG
genomic: ATTTGAACCTGTCTTTGCCCAATTCTTTGAGCCGTTGATGAAATTTGCGgtgggtatta ... gtgtctgtagAAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcttcttccattgaaacttaggcacttactgtttcacttcttgtgtctgtagAAAGCTTCACGTCCTCCACAGGATAGGACAATGGTAGTTGCTAGTCTTGCTGAGGTTGCTCAAGACATGGGTCTTCCAATCTCTTCCTATGTTGAT
                         cacttac  putative branch site (score: 2)
                                       cttcttgt  putative PPT
            attgaaa  TA-rich tract