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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactactatgtacttactttcttgcgtttctttgagctcttgcttttgtctaaatgctaacaaattttttggggtaataaaaataaagGTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTCCGACCCATTTTGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCA

Basic information

species Arabidopsis thaliana
transcript AT5G42050.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G42050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G10640.1 (Glycine max), 3'ss of exon 3
--------------gtactactatgtacttactttcttgcgtttctttgagctcttgcttttgtctaaatgctaacaaattttttggggtaataaaaataaagGTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTCCGACCCATTTTGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCA
              ||| |  ||     | ||  |       |  ||  |   |||  |||||   |||  || |  |||||| |     |  |    || ||||    |  || || |||||||| |||  |||||| || |||||||| ||| |||| ||| | |||||||||||||| ||||||||||| || || || |
ctgtttggttgacagtattggtagtagatgacaattaaattctaattatattactttgttttgctaaaa--cttatgaattttgtata-catgatggttacagGTTCAAGTGATTACTAGGAAAGTTTGTGAGCCACTAGAGGAAGATTCCTTCAGACCAATTCTTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGA
















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|124949058|gb|EL024724.1|EL024724
EST:     ATGCTTTTGAAGACAAGAAATGTCCTGGCGAATCTCGTTTCCCTGCTCAG                         GTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAG
genomic: ATGCTTTTGAAGACAAGAAATGTCCTGGCGAATCTCGTTTCCCTGCTCAGgtactactat ... aaaaataaagGTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAG
EST: gi|125176197|gb|EL195678.1|EL195678
EST:     TGCTTTTGAAGTACAAGAAATGTCCTGGCGAATCTCGTTTCCCTGCTCAG                         GTGAGGGCCATAACGAGGAAAGTATGTTTGCCA
genomic: TGCTTTTGAAG-ACAAGAAATGTCCTGGCGAATCTCGTTTCCCTGCTCAGgtactactat ... aaaaataaagGTGAGGGCCATAACGAGGAAAGTATGTTTGCCA
EST: gi|124932519|gb|EL009771.1|EL009771
EST:     TCCTGGCGAATCTCGTTTCCCTGCTCAG                         GTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTC
genomic: TCCTGGCGAATCTCGTTTCCCTGCTCAGgtactactat ... aaaaataaagGTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTC
EST: gi|116481291|gb|EG523883.1|EG523883
EST:     ATGCTTTTGAAGACAAGAAATGTCCTGGCGAATCTCGTTTCCCTGCTCAG                         GTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTC
genomic: ATGCTTTTGAAGACAAGAAATGTCCTGGCGAATCTCGTTTCCCTGCTCAGgtactactat ... aaaaataaagGTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagctcttgcttttgtctaaatgctaacaaattttttggggtaataaaaataaagGTGAGGGCCATAACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTCCGACCCATTTTGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCA
                     tgctaac  putative branch site (score: 1)
                                         taataaaaataaa  TA-rich tract