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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttactactactaaaacactcttaagctctatattcttcaacagttcttgttcaggaatcctctaaatattattagcgtcttaaaattaatcttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G46020.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G46020.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G093535_T01 (Zea mays), 5'ss of exon 1
--GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttactactactaaaacactcttaagctctatattcttcaacagttcttgttcaggaatcctctaaatattattagcgtcttaaaattaatcttgtag
    | | || || |||||||||||||||||||||||||    | |   || |  | |      | |  | ||  ||||      |    | | |  | |        |  |||| ||   | |   |   | || || 
AGCTTGGAAAGACAACTGAACTCTCAAGGCGTGAAAGgtgcacttcc-ttatttgagctaaaaaatgtgccattgtcttatgttttgaccgataataattttgagctttgatatttgcagttcattttccctgttata-

upper sequence: AT5G46020.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G148985_T02 (Zea mays), 5'ss of exon 5
GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttactactactaaaacactcttaagctctatattcttcaacagttcttgttcaggaatcctctaaatattattagcgtcttaaaattaatcttgtag-----
  | | || || |||||||||||||||||||||||||   ||  |  || |  | |      | || | || |||||      || ||  | | ||      |    |   ||    | |  |  |   | ||   |     
TTTGGCAAGACAACTGAACTCTCAAGGCGTGAAAGgtgcatt-ttcttatttgagc-taaaaatgcgccattttcttt-----tttttactaaagacaataattttgagctttgatatttggagttcggttttcctgttata
















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|164200217|gb|ES057084.1|ES057084
EST:     GTAAAACCACTGAACTCTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACATGAGGTTGCAAGA
genomic: GTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACATGAGGTTGCAAGA
EST: gi|124914338|gb|EH988212.1|EH988212
EST:     ACTGAACTCTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACAATGAGGTTGCAAG
genomic: ACTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACA-TGAGGTTGCAAG
EST: gi|125084305|gb|EL144558.1|EL144558
EST:     CTGAACTCTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACATAGAGGTTGCAAG
genomic: CTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACAT-GAGGTTGCAAG
EST: gi|124817438|gb|EH902304.1|EH902304
EST:     TAAAACCAACTGAACTCTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACATGAGGTTGCAAGA
genomic: TAAAACC-ACTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACATGAGGTTGCAAGA
EST: gi|125263858|gb|EL277943.1|EL277943
EST:     GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCAGCGAGCT
genomic: GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCAGCGAGCT
EST: gi|164000726|gb|EL970592.1|EL970592
EST:     GCTAGTAAAACCACTGAACTCTTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCA
genomic: GCTAGTAAAACCACTGAACTCT-CAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCA
EST: gi|164143330|gb|ES091677.1|ES091677
EST:     GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCAGCGAGC
genomic: GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCAGCGAGC
EST: gi|125236300|gb|EL250385.1|EL250385
EST:     GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAG                         AGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACATGAGGTT
genomic: GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagAGAGGAGCTAGAGAAGCAGCGAGCTCATGAGCGATACATGAGGTT
EST: gi|124768906|gb|EH859036.1|EH859036
EST:     GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAG                         AAGAGGAGCTAGAGAAGCAGCGAG
genomic: GCTAGTAAAACCACTGAACTCTCAAGGCGTGAAAGgtctgttact ... aatcttgtagA-GAGGAGCTAGAGAAGCAGCGAG