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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttgacattagattgttatttatgttgcattcattgaaggtcctttctgttggctgattttgaccaattttctgcaataaatatgtttgcaatatgcagGGTATGTTAGAAGGAGTTAGTCACTCATTTACAAAGAACTTTCACTTTATAGATTCAGTGAAAGCCTACCTCTCATATGCATTGTTGCGGGCGTCGGTTT

Basic information

species Arabidopsis thaliana
transcript AT3G43300.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 11
tgttgacattagattgttatttatgttgcattcattgaaggtcctttctgttggctg--attttgaccaattttctgcaataaatatgtttgcaatatgcagGGTATGTTAGAAGGAGTTAGTCACTCATTTACAAAGAACTTTCACTTTATAGATTCAGTGAAAGCCTACCTCTCATATGCATTGTTGCGGGCGTCGGTTT
| ||  |||     |  |    || |   |||||          | | ||   | |   ||||||||   |      || |   | |  |   | | | |||||| |||| || ||||| || |||||||||||||||||||| || ||||| ||||||||||| || || || |||||||||||||| || || || ||||
tattc-catccttgttcttcccatttgatattcaaacttttcattctttgacagttactattttgactgttcagtcaca-tgcttcttatgttatttttcagGGTTTGTTGGAGGGAGTCAGCCACTCATTTACAAAGAACTTCCATTTTATTGATTCAGTGAAGGCATATCTTTCATATGCATTGTTACGAGCTTCAGTTT

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 12
tgttgacattagattgttatttatgttgcattcattgaaggtcctttctgttggctgattttgacc---aattttctgcaataaatatgtt-tgcaatatg-cagGGTATGTTAGAAGGAGTTAGTCACTCATTTACAAAGAACTTTCACTTTATAGATTCAGTGAAAGCCTACCTCTCATATGCATTGTTGCGGGCGTCGGTTT
| ||  |||    ||||| || |  ||  ||  ||| ||| |  |   | || |    ||   |     | | ||| |  | |    |||| ||  || |  |||||| || | || ||||| || |||||||||||||||||||| || ||||| ||||||||||| || || || |||||||||||||| || || || ||||
tattc-catcc--ttgttcttcacatttgat--attcaagcttttcattctttgacagttactattttgactgttcagtcacatgcttgttatgttatttttcagGGTTTGCTGGAGGGAGTCAGCCACTCATTTACAAAGAACTTCCATTTTATTGATTCAGTGAAGGCATATCTTTCATATGCATTGTTACGAGCTTCAGTTT
















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|125003295|gb|EL075564.1|EL075564
EST:     GTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAG                         GGTATGTTAGAAGGAG
genomic: GTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAGgtaaacctag ... caatatgcagGGTATGTTAGAAGGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgttggctgattttgaccaattttctgcaataaatatgtttgcaatatgcagGGTATGTTAGAAGGAGTTAGTCACTCATTTACAAAGAACTTTCACTTTATAGATTCAGTGAAAGCCTACCTCTCATATGCATTGTTGCGGGCGTCGGTTT
             ttttgac  putative branch site (score: 3)
                               aataaatatgttt  TA-rich tract