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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatacctcagaacttgcaaaagacttttcgtaaactctctggattataccttaccctgctctcggattgccacagGAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATG

Basic information

species Arabidopsis thaliana
transcript AT5G17060.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G17060.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G09790.3 (Glycine max), 3'ss of exon 3
gtataatacc-tcagaacttgcaaaagacttttcgtaaactctctggattataccttaccctgctct-cggattgcc-acagGAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATG
   | |||   ||| ||  || | |   | |     |   | |    |  | |  ||     | |||  ||||| |   |||   |||||||| || ||||| |||||  ||||||||||  |||||||||| |||||||||||| ||
--gtgataaaatcaaaatgtgtaca---catacaccatgttattccaaacagattttgaatagatctatggattacttgcagACAATCATAAATGATCCATTTATGCTCCACAGTATCATCTTGGTGTTTGCCAACAAACAGGACCTG

upper sequence: AT5G17060.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA01G43910.2 (Glycine max), 3'ss of exon 5
gt-ataatacctcaga-acttgcaaaagacttttcgtaaactctctggattataccttaccctgctctcggattgcc-acagGAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATG
|| | || | |  |   |||| || | |  | | | |    | |||  |  |    | |    | ||  ||||| |   |||   |||||||| |||||||| ||||| || ||| ||||  |||||||||| |||||||||||| ||
gtgacaaaatcaaattcactttcatatgtgtgtgcttgttat-tctaaacaaattttgaattggttcatggattacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCCAACAAACAGGACCTG
















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|164089976|gb|ES136104.1|ES136104
EST:     TGGATTCCTTAGATCGAGAGAGGATCGGGAAAGCAAAGCAAGAATTTCAG                         GAGATCATAAAAGACCCATTCA
genomic: TGGATTCCTTAGATCGAGAGAGGATCGGGAAAGCAAAGCAAGAATTTCAGgtataatacc ... attgccacagGAGATCATAAAAGACCCATTCA
EST: gi|86078395|gb|DR374152.1|DR374152
EST:     CCTTAGATCGAGAGAGGATCGGGAAWGCAAAGCAAGAATTTCAG                         GAGWTCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCA
genomic: CCTTAGATCGAGAGAGGATCGGGAAAGCAAAGCAAGAATTTCAGgtataatacc ... attgccacagGAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agacttttcgtaaactctctggattataccttaccctgctctcggattgccacagGAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATG
                           accttac  putative branch site (score: 3)
                      attata  TA-rich tract