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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGTACCTCTAGAAGCCTTAGCGCATAGAATAGCTGCTGTAGGAACTGGTTCAAGACCATTGCTACATGATGATGAGTCAGGGGACACATACACAGCGgtaatgctaccactgttaagctataaaaaagaatttatctttccctgtggttttgctcatttgtaacttcaaatag

Basic information

species Arabidopsis thaliana
transcript AT4G39540.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39540.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA04G39710.1 (Glycine max), 5'ss of exon 5
---TGATGTACCTCTAGAAGCCTTAGCGCATAGAATAGCTGCTGTAGGAACTGGTTCAAGACCATTGCTACATGATGATGAGTCAGGGGACACATACACAGCGgtaatgctaccactgttaagctataaaaaagaatttatctttccc------tgtggttttgctcatttgtaacttcaaatag--------------------------------------------------------------------------
    ||||||||| |||||||||| || || |||||| | ||||||||||||| |||  ||||| | |||||| |||| ||   ||| ||  ||||||||  |||||    |  | | ||   | || | | |   ||| |||||  |      |  |    |    | |   ||  |   | |                                                                           
GTTGGATGTACCTGTAGAAGCCTTGGCTCAGAGAATAACAGCTGTAGGAACTGATTCTCGACCACTTCTACATTATGAAGA---AGGAGATGCATACACAAAGgtaa----atgatttttcttccatgacacaagttttttcttttgcaaaatataagacagtaactaataagaatcttggaaatttggaggaactgatcttagcatcaaaaacatttttttccagtaaataattttaccctttggaattgacctgcag

upper sequence: AT4G39540.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA06G15160.1 (Glycine max), 5'ss of exon 5
---TGATGTACCTCTAGAAGCCTTAGCGCATAGAATAGCTGCTGTAGGAACTGGTTCAAGACCATTGCTACATGATGATGAGTCAGGGGACACATACACAGCGgtaatgctaccactgttaagctataaaaaagaatttatctttccctgtggttttgctcatttgtaacttcaaatag
    |||||||||||| |||||||||  || |||||| | ||||||||||||| |||  | ||| | |||||| |||| ||   ||| ||  ||||||||  |||||    |  | | ||   | || | | | | ||| | |||  |      |  |                     
GTTGGATGTACCTCTAAAAGCCTTAGGTCAGAGAATAACAGCTGTAGGAACTGATTCTCGCCCACTTCTACATTATGAAGA---AGGTGATGCATACACAAAGgtaa----atgatttttcttccatgacaca-agttttttttttgcaaaatataag---------------------
















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|19798412|gb|AU229842.1|AU229842
EST:     GCTACATGATGATGAGTCA-GGGACACATACACAGCG                         GCTTTAAACCGTCTTTCAACGATTT-GGATGCACGTGGTGAAGCATACACT
genomic: GCTACATGATGATGAGTCAGGGGACACATACACAGCGgtaatgctac ... cttcaaatagGCTTTAAACCGTCTTTCAACGATTTGGGATGCACGTGGTGAAGCATACACT
EST: gi|124748495|gb|EH838625.1|EH838625
EST:     GTTCAAGACCATTGCTACATGATGATGAGTCAGGGGACACATACACAGCG                         GCTTTAAACCGTCTTTC
genomic: GTTCAAGACCATTGCTACATGATGATGAGTCAGGGGACACATACACAGCGgtaatgctac ... cttcaaatagGCTTTAAACCGTCTTTC
EST: gi|86084950|gb|DR380709.1|DR380709
EST:     GTTCAAGACCATTGCTACATGATGATGAGTCAGGGGACACATACACAGCG                         GCTTTAAACCGTCTTTCAACGATTTGGGATGCACGTGGTGAAGCATACACT
genomic: GTTCAAGACCATTGCTACATGATGATGAGTCAGGGGACACATACACAGCGgtaatgctac ... cttcaaatagGCTTTAAACCGTCTTTCAACGATTTGGGATGCACGTGGTGAAGCATACACT