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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcgtccttgtgatcacatgaataggttgagtaaacacacagttagagccagtagtcataaaggtatatttattgaagtttaagcttgatgatttgggcagGTGTTGATGTGAGCATGAACACTCACTTGAAGACAGTGAAGATGAGCCTGAAGGGGAAAAACCCAGTAACACTTGATCATCTTAGCTTGAGGGGTAATAA

Basic information

species Arabidopsis thaliana
transcript AT3G07590.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G07590.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G027571_T01 (Zea mays), 3'ss of exon 1
gcgtccttgtgatcacatgaataggttgagtaaacacacagtta-gagccagtagtcataaaggtatatttattga--agtttaagcttgatgatttgggcagGTGTTGATGTGAGCATGAACACTCACTTGAAGACAGTGAAGATGAGCCTGAAGGGGAAAAACCCAGTAACACTTGATCATCTTAGCTTGAGGGGTAATAA
  |  | | |  |  |    |  | |   || ||   |   | | |     ||  | | | |   ||||    |||    |  |   ||  |  |||||| |||||||||  | ||||||||||||||  |||||||||||||| | |  ||||| ||||| ||||| ||||||||||| || || ||| || | || || ||
--gcacatatt-ttgctaataccgatgaggttaatctaggatcatggttttgtttttacacaataatatcccctgacccatgcatctttttttttttgggtagGTGTTGACATAAGCATGAACACTCATCTGAAGACAGTGAAGCTTACACTGAAAGGGAAGAACCCTGTAACACTTGACCACCTCAGCGTGCGAGGAAACAA
















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|86074827|gb|DR370584.1|DR370584
EST:     TGTGTCTATCGAGCTGAAGAATGGGACTGTGGTCCATGGAACCATCACTG                         GTGTTGATGTGAGCATGAACACTCACTTGAAGACAGTGAAGATGAGCCTGA
genomic: TGTGTCTATCGAGCTGAAGAATGGGACTGTGGTCCATGGAACCATCACTGgtaagttctt ... atttgggcagGTGTTGATGTGAGCATGAACACTCACTTGAAGACAGTGAAGATGAGCCTGA
EST: gi|163995892|gb|ES003896.1|ES003896
EST:     GTCCATGGAACCATCTCTG                         GTGTTGATGTGAGCATGAACACTCACTTGAAGACAGTGAAGA
genomic: GTCCATGGAACCATCACTGgtaagttctt ... atttgggcagGTGTTGATGTGAGCATGAACACTCACTTGAAGACAGTGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccagtagtcataaaggtatatttattgaagtttaagcttgatgatttgggcagGTGTTGATGTGAGCATGAACACTCACTTGAAGACAGTGAAGATGAGCCTGAAGGGGAAAAACCCAGTAACACTTGATCATCTTAGCTTGAGGGGTAATAA
                                     gcttgat  putative branch site (score: 5)
                  tatatttattgaagtt  TA-rich tract