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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgggtcaaggaacttgattaggtttctatgagttgacatggcattataaaagacttaccaatatatctgtatagATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGGGAGGTGTCAGCGAAAGTAACTTCATAGTAGATCTAACCGCTGGTGAAAA

Basic information

species Arabidopsis thaliana
transcript AT4G18810.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G18810.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g13970.2 (Oryza sativa), 3'ss of exon 7
------------------gtaagttgggtcaaggaacttgattaggtttctatgagttgacatggcattataa--aagacttaccaatatatctgtatagATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGGGAGGTGTCAGCGAAAGTAACTTCATAGTAGATCTAACCGCTGGTGAAAA
                   |  ||        | |  ||  ||   |||| ||   |     |    |  | |  |  || |   | |   | | | |||  |||   |      |  |   |||||||||| | ||||||||||| ||||||||||| || ||||| |  |||  | |  | | ||| |   |||||| 
ttatttttccatccctacatgtgtatacatttgtatgttagttgtctttcaatatataagttttttttccttatcacaacatgttagttattttatttagGCAACTTATCCGGAAAGATTGTTTGGGGAGCACTTGATGATGTTGTGATGGGAGGTGTTAGTGAAAGCACATTCCAAATCCAACCAACAGGAAGTGAAAC

upper sequence: AT4G18810.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ30553 (Selaginella moellendorffii), 3'ss of exon 5
gtaagttgggtcaaggaacttgattaggtttctatgagttgacatggcattataaaagacttaccaatatatctgtatagA-TAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGGGAGGTGTCAGCGAAAGTAACTTCATAGTAGATCTAACCGCTGGTGAAAA
                      |  ||  |  |||   ||    | |||     ||  |  | ||    |    ||| ||| |  ||    |   |  |   | |||||| | ||||| |||||||| ||||||||||| |||||||||    |   ||| |  | |   |  | |||   
--------------------gtaagagagtgatattgtttattcttgcac----aattatgtcccgtcttggtcgtagAGAATGGCATTCCTTTCGGGCCCGCGTGGGGATCTTTGGACGATGTTGTTATGGGAGGTGTGAGCGAAAGTTTTCTGCAAGTTGGCCGAGAGGGAGATGA---
















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|86064609|gb|DR360366.1|DR360366
EST:     TTGAGAATGGGAAGCTTATTTTTGGTGTCGGGG                         ATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGG
genomic: TTGAGAATGGGAAGCTTATTTTTGGTGTCGGGGgtaagttggg ... atctgtatagATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGG
EST: gi|86064608|gb|DR360365.1|DR360365
EST:     TTGAGAATGGGAAGCTTATTTTTGGTGTCGGGG                         ATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGG
genomic: TTGAGAATGGGAAGCTTATTTTTGGTGTCGGGGgtaagttggg ... atctgtatagATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGG
EST: gi|125262664|gb|EL276749.1|EL276749
EST:     TAGAGATGGTGTTGGACTTGAGAATGGGAAGCTTATTTTTGGTGTCGGGG                         ATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGG
genomic: TAGAGATGGTGTTGGACTTGAGAATGGGAAGCTTATTTTTGGTGTCGGGGgtaagttggg ... atctgtatagATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtttctatgagttgacatggcattataaaagacttaccaatatatctgtatagATAACACGTTTAAGGATCTACCTTGGGGAGCATTGGATGATGTTGTAATGGGAGGTGTCAGCGAAAGTAACTTCATAGTAGATCTAACCGCTGGTGAAAA
                                gacttac  putative branch site (score: 2)
                       attataaaagactta  TA-rich tract