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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGAAGCTCTTTTGTGACAAAGATTACCCGGAGAAACCTCCAACTGTCCGATTCCATTCACGTGTCAACATGGCTTGTGTCAACCACGAAACAGGAGTGgtacgtataaactcaccaccgcccttcctttctctgttttgtttctttggatgctctgtaatttttttatgcgtatgtgtatag

Basic information

species Arabidopsis thaliana
transcript AT3G52560.4
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G027378_T01 (Zea mays), 5'ss of exon 3
GTTGAAGCTCTTTTGTGACAAAGATTACCCGGAGAAACCTCCAACTGTCCGATTCCATTCACGTGTCAACATGGCTTGTGTCAACCACGAAACAGGAGTGgtacgtataaactcaccaccgcccttcctttctctgt-tttgtttctttggatgctc---tgtaatttttttat--gcgtatgtgtatag
| ||||| | |||||||||||||| || |||||||| || ||| ||||| ||||||| ||| |  |||||||| | || || || ||||| |||||| |||||     |   |   ||   |  |        |||    ||       |||| | |     ||||||   |||  | | ||  || |||
GCTGAAGTTGTTTTGTGACAAAGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGACATGCGTTAATCACGAGACAGGAATGgta-----atctttgtcatgtctgtgtgagcaactgagcatgcacaaggggattcacacaactaatttgactattggtgcatccgtgtag

upper sequence: AT3G52560.4 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0080g01080.t01 (Vitis vinifera), 5'ss of exon 3
GTTGAAGCTCTTTTGTGACAAAGATTACCCGGAGAAACCTCCAACTGTCCGATTCCATTCACGTGTCAACATGGCTTGTGTCAACCACGAAACAGGAGTGgtacgtataaactcaccaccgcccttcctttctctgttttgtttctttggatgctctgtaatttttttatgcgtatg-tgtatag----------------
  ||||||| |||||||| |||||||| |||||||| ||||| | ||| || |||||||||||  ||||||||  |||||| || || || || |||||||||    |    |    | |  |  ||   |   | | |    |  ||  |   ||     | ||||| ||  ||     | |                  
ACTGAAGCTTTTTTGTGATAAAGATTATCCGGAGAAGCCTCCTAGTGTACGGTTCCATTCACGCATCAACATGATTTGTGTGAATCATGAGACTGGAGTGgtaaagttgtgatt-tgatctgctgtctaattgatttgtgaagtaattaaaatttcaaatttgtttttctggttacaacatttgatcctgcttccattagt
















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|125280115|gb|EL294200.1|EL294200
EST:     ATTCACGTGGTCAACATGGCTTGTGTCAACCACGAAACAGGAGTG                         GTGGATCCTAAGAAATTTGGGCTA
genomic: ATTCACGT-GTCAACATGGCTTGTGTCAACCACGAAACAGGAGTGgtacgtataa ... atgtgtatagGTGGATCCTAAGAAATTTGGGCTA
EST: gi|124715266|gb|EH806668.1|EH806668
EST:     GATTCCATTCACGTGTCAACATGGCTTGTGTCAACCACGAAACAGGAGTG                         GTGGATCCTAAGAAATTTGGGCTACTTGCAAACTGGCAAAGAG
genomic: GATTCCATTCACGTGTCAACATGGCTTGTGTCAACCACGAAACAGGAGTGgtacgtataa ... atgtgtatagGTGGATCCTAAGAAATTTGGGCTACTTGCAAACTGGCAAAGAG