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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaatctttgtgaggatctttctatggtctgtataactctttgcttatgatatttttgttccaataatgttgcagGAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCTATATCTTGGTCTCGAATTTTCCCTG

Basic information

species Arabidopsis thaliana
transcript AT5G36890.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G36890.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G16220.1 (Glycine max), 3'ss of exon 3
---------------gtaactaatctttgtgaggatct---ttctatggtctgtataactctttgc-ttatgatatttttgt-tccaataatgttg-cagGAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCTATATCTTGGTCTCGAATTTTCCCTG
                ||| || |  |  | |   |||   ||||    | |||| || | ||    |  | |  ||| ||  |  ||| ||| |  ||||||||| ||||||||||||   | || ||||| | |||||| |||||||| || ||||||||||| |||||||| |
tatttagggtatcttataattatttctattaactgtctggcttctgccttatgtacaaattttcaaatcttaacttttctgaatgtaattatggtaacagGAAGATATTGATCTTATAGCCAAGTTGGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG
















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|86058097|gb|DR353854.1|DR353854
EST:     TTGATGGAAGTAACGGCGATGTTGCTGTGGATCATTACCATAGATACAAG                         GAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCT
genomic: TTGATGGAAGTAACGGCGATGTTGCTGTGGATCATTACCATAGATACAAGgtaactaatc ... aatgttgcagGAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCT
EST: gi|86058096|gb|DR353853.1|DR353853
EST:     TTGATGGAAGTAACGGCGATGTTGCTGTGGATCATTACCATAGATACAAG                         GAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCT
genomic: TTGATGGAAGTAACGGCGATGTTGCTGTGGATCATTACCATAGATACAAGgtaactaatc ... aatgttgcagGAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCT
EST: gi|86058095|gb|DR353852.1|DR353852
EST:     TTGATGGAAGTAACGGCGATGTTGCTGTGGATCATTACCATAGATACAAG                         GAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCT
genomic: TTGATGGAAGTAACGGCGATGTTGCTGTGGATCATTACCATAGATACAAGgtaactaatc ... aatgttgcagGAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatggtctgtataactctttgcttatgatatttttgttccaataatgttgcagGAAGATGTTGATCTTATAGGACAATTAGGATTCGGTGCTTACAGATTTTCTATATCTTGGTCTCGAATTTTCCCTG
          gtataac  putative branch site (score: 3)
                        ttatgatatttttgtt  TA-rich tract