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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtagataaaaatctcactttgttactaaaaccatattcataaaacagaggttttgtcacttgttaagtaactctatttggtttggtttggttaagtatatgttattgatatcataaggctcggtttacagGAAGCTATGGTCAAAGATACATTGGAACGAGCAAGAGAACCCAATTTTAATCTGAAACCGTATCTTCAAAAAGCATACATTCATCCGGTTTTCAAAGACA

Basic information

species Arabidopsis thaliana
transcript AT1G11960.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G11960.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 11
gttagtagataaaaatctcactttgttactaaaaccatattcataaaacagaggttttgtcacttgttaagtaactctatttggtttggtttggttaagtatatgttattgatatcataaggctcggtttacagGAAGCTATGGTCAAAGATACATTGGAACGAGCAAGAGAACCCAATTTTAATCTGAAACCGTATCTTCAAAAAGCATACATTCATCCGGTTTTCAAAGACA
                             ||| ||  ||| |||||||    |  |   ||  || |  | | |   || |     |  |    || | | | |    ||| | | ||||   |  ||  ||||||||| ||| | ||||| |||||||||||||| | ||| ||||| |||||  ||||| | || ||||| || |||||  ||||||| ||||||||||  |
-----------------------------taatac--tatccataaaatgatgcctgaatcctttttatacttataatactgaaccttatcatttttaatttttac-gttgcttttataaaatt--gtaaacagGAAGCGATGATGAAAGACACATTGGAACGAGCTACAGATCCCAACTTTAACTTGAAAGCTTACCTTCAGAATGCATATGTTCATCCAGTTTTCAAAGCTA
















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|164082535|gb|ES003458.1|ES003458
EST:     GGTACTGCAAAGGCCGGTATGAACCAGCATTCCTCCGTCACCCCTTGAAG                         GAAGCTATGGTCAAAGATACATT
genomic: GGTACTGCAAAGGCCGGTATGAACCAGCATTCCTCCGTCACCCCTTGAAGgttagtagat ... cggtttacagGAAGCTATGGTCAAAGATACATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggtttggtttggttaagtatatgttattgatatcataaggctcggtttacagGAAGCTATGGTCAAAGATACATTGGAACGAGCAAGAGAACCCAATTTTAATCTGAAACCGTATCTTCAAAAAGCATACATTCATCCGGTTTTCAAAGACA
                           tattgat  putative branch site (score: 3)
               ttaagtatatgttatt  TA-rich tract