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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattgtataaaaatccgtcaataaactgatatggatttactcacgtcttctcacctcagcaatactttgttcttaaaacaaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAACAAACTTGCCAAGCATTTACGAAGTATTGATTCTCTCGTCATAACCAAGA

Basic information

species Arabidopsis thaliana
transcript AT5G60640.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G60640.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA13G40130.1 (Glycine max), 3'ss of exon 9
gtaatattgtataaaaatccgtcaataaactgatatggatttactcacgtcttctcacctcagcaatactttgttcttaaaacaaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAACAAACTTGCCAAGCATTTACGAAGTATTGATTCTCTCGTCATAACCAAGA
             |||||    |  |  |||  | | | | || |  | ||| | ||         |  |||  |  |      ||  |||| | || || || |||||||||||||||||| | || |||||||| || ||||| ||||| || ||| | || | |||||||||||| || ||| ||||||
-----------gtaaaatttaaccctttact--tttagttatatttgcatctgcacattgatcatgttatttaatgctcggttgaa--tcagATTTATGCTCCCTGGTGTGGCCATTGCCAATCACTGGAGCCAATATACAACAAGCTTGCAAAACATCTTCGCAATATTGATTCTCTTGTAATAGCCAAGA

upper sequence: AT5G60640.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv06s0004g02890.t01 (Vitis vinifera), 3'ss of exon 9
-----------------gtaatattgtataaaaatccgtcaataaactgatatggatttactcacgtcttctcacctcagcaatactttgttcttaaaacaaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAACAAACTTGCCAAGCATTTACGAAGTATTGATTCTCTCGTCATAACCAAGA
                 ||||||  || |     ||| || ||||      ||   |  | |   ||  | | |    |  |||  | || | |        ||  ||| |||| |||||||||||||| ||||||||||| ||||||||||  |||||||| |||||||| ||| |||   | ||||| ||||| || ||| |||| |
gtatcatttcattcctagtaataa-gtgtgtgcttccatctataattctccatc--tcaatttctgtacttttatgggaataat--tctgatatgtgcttggaatacagATCTATGCACCATGGTGTGGTCATTGCCAAGCTCTTGAGCCAACATATAACAAGCTTGCCAAACATCTACATGGCATTGAGTCTCTTGTTATAGCCAAAA
















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|86054026|gb|DR349783.1|DR349783
EST:     ATAACTTTGATGAAATTGTTCTGGACGATTCTAAAGATGTGCTTCTCGAG                         GTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAAN
genomic: ATAACTTTGATGAAATTGTTCTGGACGATTCTAAAGATGTGCTTCTCGAGgtaatattgt ... caaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAAC
EST: gi|86074845|gb|DR370602.1|DR370602
EST:     ATAACTTTGATGAAATTGTTCTGGACGATTCTAAAGATGTGCTTCTCGAG                         GTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAAC
genomic: ATAACTTTGATGAAATTGTTCTGGACGATTCTAAAGATGTGCTTCTCGAGgtaatattgt ... caaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAAC
EST: gi|86054033|gb|DR349790.1|DR349790
EST:     ATAACTTTGATGAAATTGTTCTGGACGATTCTAAAGATGTGCTTCTCGAG                         GTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAAC
genomic: ATAACTTTGATGAAATTGTTCTGGACGATTCTAAAGATGTGCTTCTCGAGgtaatattgt ... caaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttactcacgtcttctcacctcagcaatactttgttcttaaaacaaaactcagGTCTACGCACCATGGTGTGGCCATTGCCAAGCCCTTGAGCCAATGTATAACAAACTTGCCAAGCATTTACGAAGTATTGATTCTCTCGTCATAACCAAGA
                                    ttcttaaaacaaaa  TA-rich tract