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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatttactttttctatcgacttaagagcctattttccttttgacttttaattatattactgaactggatgttggatccaatgccagGGCCGTGAACCATTTGTGTCGTATGAGGGACTCGAGCAACTCCTAAGATTCTTATTCGTCCTGGGTATCACTCATGTTCTATACAGTGGCATTGCCATTG

Basic information

species Arabidopsis thaliana
transcript AT1G11000.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G11000.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G29080.1 (Glycine max), 3'ss of exon 2
--------gtaaatatttactttt-tctatcgacttaagagcctattttccttttga--cttttaattatattactgaactggatgttggatccaatgccagGGCCGTGAACCATTTGTGTCGTATGAGGGACTCGAGCAACTCCTAAGATTCTTATTCGTCCTGGGTATCACTCATGTTCTATACAGTGGCATTGCCATTG
              |||  ||| | |  | | |  | ||| |  || ||| ||   |  ||   ||| |   | |||||     |  |  ||  ||||| |||||| |||||||||||| ||||||||||| || ||||| || |   | |||||||| || || || |||||||||||||| || ||| |  | ||  |||
acaaacttcagggcattatcttctgttgaacaaactgagatcaaatattctttgcaatactacaaatcacccttctgaaaattttaataaatg-aatgc-agGGCCATGAACCATTTGTTTCGTATGAGGGTCTTGAGCAGCTGCACCGGTTCTTATTTGTTCTCGGGATCACTCATGTTCTGTATAGTTGTCTGGCTGTTG
















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|19875228|gb|AU236059.1|AU236059
EST:     GCTCCTTACCTCATCATGGAATACATGAAGCCTCTCATCAATGTGGTCAT                         GGCCGTGAACCATTTTGTGTCGNCATGAGGGACTNCGAGCAACTCCTNAGA
genomic: GCTCCTTACCTCATCATGGAATACATGAAGCCTCTCATCAATGTGGTCATgtaaatattt ... ccaatgccagGGCCGTGAACCATTT-GTGTCGT-ATGAGGGACT-CGAGCAACTCCTAAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttccttttgacttttaattatattactgaactggatgttggatccaatgccagGGCCGTGAACCATTTGTGTCGTATGAGGGACTCGAGCAACTCCTAAGATTCTTATTCGTCCTGGGTATCACTCATGTTCTATACAGTGGCATTGCCATTG
             ttttaat  putative branch site (score: 3)
      ttttgacttttaatta  TA-rich tract