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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtcatcataatcatcaatagactctattcaaatttgcattttcaaaatgtagtattgttctaaaaacttgagatgaacgcagGTTGAAGTGTTTCATCTGAAGCAAAGATTACAATCTCTAGAGAACAGAGCTGCTACACCCAGAAAGCCTTTCCATGTCTAAACACAGACCAGAGACAACA

Basic information

species Arabidopsis thaliana
transcript AT5G18590.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18590.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: LOC_Os11g43590.4 (Oryza sativa), 3'ss of exon 14
--------------------gtgtca-tcataatcatcaatagactctattcaaatttgcattttcaaaatgtagtattgttctaaaaacttgagatgaacgcagGTTGAAGTGTTTCATCTGAAGCAAAGATTACAATCTCTAGAGAACAGAGCTGCTACACCCAGAAAGCCTTTCCATGTCTAAA--CACAGACCAGAGACAACA
                    | |  | | || |   ||||||   | | ||  |  |   | | || |  |     | | |  | | |  |||   ||    |||||||||||||| ||||||||||||||  | ||| |  | ||    ||| |  | ||||| || || |||    || | ||      |||||   | | | | 
aaacatattttctgaagctggagcaaataatcaatttcaataatttgtgttgcatctgtgactgtccatgtaactgactttgttgata--ttgctttgc---cagGTTGAAGTGTTCCATCTGAAGCAAAGGCTGCAAACAATGGAAGGAAGATCCCCAACACCAAGGAAACCTCAGAATCTGTAGGGGTGCAGACTGCACA-AGC-
















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|124947000|gb|EL022872.1|EL022872
EST:     AGAGGAGTTCTTGCAGGAGAAAGAGCAAGAGCGTTCCAGTTGCAG                         GTTGAAGTGTTTCATCTGAAGCAAAGATTACAATCTCTAGAGAA
genomic: AGAGGAGTTCTTGCAGGAGAAAGAGCAAGAGCGTTCCAGTTGCAGgtgtcatcat ... atgaacgcagGTTGAAGTGTTTCATCTGAAGCAAAGATTACAATCTCTAGAGAA
EST: gi|86055075|gb|DR350832.1|DR350832
EST:     CAACAAGAGGAGTTCTTGCAGGAGAAAGAGCAAGAGCGTTCCAGTTGCAG                         GTTGAAGTGTTTCATCTGAAGCAAAGATTACAATCTCTAGAGAACAGAGCT
genomic: CAACAAGAGGAGTTCTTGCAGGAGAAAGAGCAAGAGCGTTCCAGTTGCAGgtgtcatcat ... atgaacgcagGTTGAAGTGTTTCATCTGAAGCAAAGATTACAATCTCTAGAGAACAGAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaatttgcattttcaaaatgtagtattgttctaaaaacttgagatgaacgcagGTTGAAGTGTTTCATCTGAAGCAAAGATTACAATCTCTAGAGAACAGAGCTGCTACACCCAGAAAGCCTTTCCATGTCTAAACACAGACCAGAGACAACA
                              ttctaaa  putative branch site (score: 2)
          attttcaaaatgta  TA-rich tract