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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttcatttgacatatataacaataacattcctctctctcttcttctccgtttatcagtaagaagagattttctcaaccccttaagttaatccggttaattttatgtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGGGAGGCGCAGTCACTTTATTGCTTCACAAAAAAGATCCTTTGTTTTGGAA

Basic information

species Arabidopsis thaliana
transcript AT2G47630.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G47630.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G37290.1 (Glycine max), 3'ss of exon 3
gtatttcatttgacatatataacaataacattcctctctctcttcttctccgtttatcagtaagaagagattttctcaaccccttaagttaatccggttaattttatgtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGGGAGGCGCAGTCACTTTATTGCTTCACAAAAAAGATCCTTTGTTTTGGAA
                   ||   ||   | |  | |   |  ||  |||  || |    | |||    |||||  |||  | ||| |         | | ||  || |     ||| ||   | ||||| | ||  || |  ||||||||||||||||| ||||||||||| ||||| |   |  |  | || ||||| || ||||  || ||| |
------------------gtatggatccaaataatttaaattctcaactctattgaaacctgagat---attttggcaaaactttatggctcataattcatttgcatatt---tcagAGCTGCAAGAGTATAAGGCAAAGGCTAGATTCTTGTATGGAGAGTCCATGGGAGGAGCAGTGAGCCTTCTTTTACATAAAAAGGACCCTTCATTCTGGGA
















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|86040706|gb|DR336461.1|DR336461
EST:     GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTG                         CGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
genomic: GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTGgtatttcatt ... gtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
EST: gi|86040705|gb|DR336460.1|DR336460
EST:     GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTG                         CGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
genomic: GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTGgtatttcatt ... gtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
EST: gi|86040708|gb|DR336463.1|DR336463
EST:     GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTG                         CGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
genomic: GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTGgtatttcatt ... gtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
EST: gi|86040707|gb|DR336462.1|DR336462
EST:     GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTG                         CGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
genomic: GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTGgtatttcatt ... gtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
EST: gi|86040702|gb|DR336457.1|DR336457
EST:     GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTG                         CGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG
genomic: GTTTGCGAATGTTGTGAATGATTGCTATGACTACTACACATCTATTTGTGgtatttcatt ... gtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaagagattttctcaaccccttaagttaatccggttaattttatgtgacaccagCGCAAGAGGAGTACATGGACAAAGGCAGATTCTTGTATGGAGAATCCATGGGAGGCGCAGTCACTTTATTGCTTCACAAAAAAGATCCTTTGTTTTGGAA
                                 ggttaat  putative branch site (score: 4)
                                   ttaattttatgtga  TA-rich tract