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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcgagtttaatcttgtccttcttggtaaagatttctctgcatgatatgaagctaatattgttctaatcaccacttgtgtattcttttgttttctctttatacttaacagGATGAGTGCAGTGGCTTATCTAGCTAGCTATTTGTCTCGTGGAAAGTTTTTGCCTGCTTCTTTTGTGGCTAGCATGTTGAAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G30590.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30590.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA09G32870.2 (Glycine max), 3'ss of exon 13
gcgagtttaatcttgtccttcttggtaaagatttctctgcatgatatgaagctaatattgttctaatcaccacttgtgtattcttttgttttctctttatacttaacagGATGAGTGCAGTGGCTTATCTAGCTAGCTATTTGTCTCGTGGAAAGTTTTTGCCTGCTTCTTTTGTGGCTAGCATGTTGAAAAG
| |  |  |||  |||  ||     |  | || | | |   |  | | || | |      ||  ||     |||| ||  ||   |  || |||   |   ||   |||||||||||| || |||||||| ||||| |||||| |||||| ||||||  |  | ||| | || ||  |||||||  |  ||||
gtgcatgaaatgatgtattttcaaatgtaaatatatgt---ttttttcaatcaa------tttcaaatgtaacttctggctttggtaattgtcttcattcgctctgcagGATGAGTGCTGTTGCTTATCTGGCTAGTTATTTGACTCGTGCAAAGTTCCTTTCAGCTGCATTGGTCACTAGCATCATACAAAG
















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|164114146|gb|ES039940.1|ES039940
EST:     ACATGTCGACTTACTAG                         GATGAGTGCAGTGGCTTATCTAGCTAGCTATTTGTCTCGTGGAAAGTTTTT
genomic: ACATGTCGACTTACTAGgcgagtttaa ... tacttaacagGATGAGTGCAGTGGCTTATCTAGCTAGCTATTTGTCTCGTGGAAAGTTTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattgttctaatcaccacttgtgtattcttttgttttctctttatacttaacagGATGAGTGCAGTGGCTTATCTAGCTAGCTATTTGTCTCGTGGAAAGTTTTTGCCTGCTTCTTTTGTGGCTAGCATGTTGAAAAG
      ttctaat  putative branch site (score: 2)
                          ttcttttgttttctct  putative PPT
                        tattcttttgtttt  TA-rich tract