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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTATGTTAATTGCTGTTTGTGTCGAAGAAGAGGAAGTAATAAATTAGCTCAAAATGCATTTCACTAAGCTTGATGACTCTCCCATGTTCCGCAAACAGgtttgtttctactacatatctttggttcctgtctatgtgtgcttgtcttgatgtgtccagtcttttagtgtcgtaggttaaaattgggtcatattaggcg...

Basic information

species Arabidopsis thaliana
transcript AT5G13300.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 1
TGTTATGTTAATTGCTGTTTGTGTCGAAGAAGAGGAAGTAATAAATTAGCTCAAAATGCATTTCACTAAGCTTGATGACTCTCCCATGTTCCGCAAACAGgtttgtttctactacatatctttggttcctgtctatg--tgtgcttgtc-ttgatgtgtccagtcttttagtgtcgtaggt-taaaattgggtcatattaggcg
                                                       ||||| ||| ||||||| ||||||||||| ||||||||||| |||||      ||  |   | |  | | ||  | | | ||  | ||||     || || |     || | |  ||   ||| |   |     ||||  | || |   
-------------------------------------------------------ATGCAATTCGCTAAGCTCGATGACTCTCCTATGTTCCGCAAGCAGgtcacgcgctcttcttttttctagatttttttttttggatttgctgaaaattaattttgatggtgtgt--gtaatgtatgcacagggcagggttttgtttgt--

upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G28890.2 (Glycine max), 5'ss of exon 1
TGTTATGTTAATTGCTGTTTGTGTCGAAGAAGAGGAAGTAATAAATTAGCTCAAAATGCATTTCACTAAGCTTGATGACTCTCCCATGTTCCGCAAACAGgtttgtttctactacatatctttggttcctgtctatgtgtgcttgtcttgatgtgtccagtcttttagtgtcgtaggttaaaattgggtcatattaggcg---
                                                       ||||| ||| ||||||| ||||||||||| ||||||||||| |||||      ||  |   | | | | |   || | | | | |  | |  ||| ||         ||||  ||| ||  || |    ||  |       ||     
-------------------------------------------------------ATGCAATTCGCTAAGCTCGATGACTCTCCTATGTTCCGCAAGCAGgtcacgcgctcttc--tttttctagaaacttttttttttttttggatttgttgcaaattaa-ttttgatgttgtgtgtaatgtatgcatagggcagggttttg
















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|19877169|gb|AU238000.1|AU238000
EST:     TCAAAATGCATTTCACTAAGCTTGATGACTCTCCCATGTTCCGCAAACAG                         TTACAAAGCATGGAGGAGAGCGCAGAAATATTGCGGGAAAGAAGTCTCAAG
genomic: TCAAAATGCATTTCACTAAGCTTGATGACTCTCCCATGTTCCGCAAACAGgtttgtttct ... tcttaaatagTTACAAAGCATGGAGGAGAGCGCAGAAATATTGCGGGAAAGAAGTCTCAAG