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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaatctgactctctttttctttaatttactttcatgtttgcgtcttatcttgtacagtcttaagttgttgtagtctcgtgttatgtagctcaagttatgctcttctgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACTACCTGGAGCCCACTTGCATCTGGTGTGCTCACTGGTAAATACAACAAGG

Basic information

species Arabidopsis thaliana
transcript AT1G04690.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G04690.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G24620.1 (Glycine max), 3'ss of exon 1
gtttgtaatctgactctctttttctttaatttactttcatgtttgcgtcttatcttgtacagtcttaagttgttgtagtctcgtgttatgtagctcaagttatgctcttctgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACTACCTGGAGCCCACTTGCATCTGGTGTGCTCACTGGTAAATACAACAAGG
            |||   ||| | |||  |  | ||| |||| |    ||| | || |   || || |  |||| |   ||  |    ||    |    ||   ||      |  || |||||||| | |||||||||||||||||||||||| |||| | ||| |||||||| ||||| || ||||| ||||| ||||||||||| ||||| || || |
---------agaactgcatttatgttttgtgca-tttaatgtct----cttcttttatttggttttga--tgttttcacctaat----tgggcttttgatttgacttgatcatgttgcagGTTGAGTCGGAGTTTCTTCCTCTGTACACCAACTATGGCACAGGCCTCACTACATGGAGTCCTCTTGCCTCTGGAGTGCTCACTGGGAAATATAAGAAAG

upper sequence: AT1G04690.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G19000.1 (Glycine max), 3'ss of exon 1
gtttgtaatctgactctctttttctttaatttactttcatgtttgcgtcttatcttgtacagtcttaagttgttgtagtctcgtgttatgtagctcaagttatgctcttctgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACTACCTGGAGCCCACTTGCATCTGGTGTGCTCACTGGTAAATACAACAAGG
              |   ||| | |||  | || || ||||  |   | || | ||    | | |    |||  ||  || | || | || |  |    ||   ||      |  || |||||||| | |||||||||||||||||||||||| |||| | ||| |||||||| ||||| || ||||| ||||| ||||||||||| ||||| || || |
--------------tacatttatgttttgtgta-ttccatgccttttttttttttt----aatttggttttggagttttcacctgat-tggactttttatttgacttgataatgttgcagGTTGAGTCTGAGTTTCTTCCTCTGTACACCAACTATGGCACAGGCCTCACTACATGGAGTCCTCTTGCCTCTGGAGTGCTCACTGGGAAATATAAGAAAG

upper sequence: AT1G04690.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv05s0051g00650.t01 (Vitis vinifera), 3'ss of exon 1
gtttgtaatctgactctctttttctttaatttactttcatgtttgcgtcttatcttgtacagtct-taagttgttgtagtctcgtgttatgtagctcaagttatgctcttctgttatgt-agGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACTACCTGGAGCCCACTTGCATCTGGTGTGCTCACTGGTAAATACAACAAGG
                    | |   | |   |     |  ||    | || | |  || ||  | ||   ||||  | ||   |   ||   | |   |  ||  |  | | | |  | |||| |||   ||||  |||||||| |||| |||| |||| |||||||| || || ||||| ||||||||||| || ||||| ||||| |||||||||||||
--------------------tatggctgaca-agaactacattgatttgttgtttcatataggatgtataatgttaaaatcctttac-atacggtttctgacatttttctatataaactcagGTCGAGTGTGAGTACCTTCCTCTATACAGCAACTATGGCATAGGTCTTACCACATGGAGTCCACTTGCATCAGGAGTGCTTACTGGAAAATACAACAAGG

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|124998058|gb|EL070327.1|EL070327
EST:     CGAACAGCCAGAATACAACATGTTCGCTAGGCACAAA                         GTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT
genomic: CGAACAGCCAGAATACAACATGTTCGCTAGGCACAAAgtttgtaatc ... tgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT
EST: gi|86077892|gb|DR373649.1|DR373649
EST:     GTCCAATTGTCGAACAGCCAGAATACAACATGTTCGCTAGGCACAAA                         GTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT
genomic: GTCCAATTGTCGAACAGCCAGAATACAACATGTTCGCTAGGCACAAAgtttgtaatc ... tgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT
EST: gi|47831309|gb|CK120993.1|CK120993
EST:     TTGGTCCAATTGTCGAACAGCCAGAATACAACATGTTCGCTAGGCACAAA                         GTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT
genomic: TTGGTCCAATTGTCGAACAGCCAGAATACAACATGTTCGCTAGGCACAAAgtttgtaatc ... tgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT
EST: gi|116446909|gb|EG489501.1|EG489501
EST:     TTGGTCCAATTGTCGAACAGCCAGAATACAACATGTTCGCTAGGCACAAA                         GTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT
genomic: TTGGTCCAATTGTCGAACAGCCAGAATACAACATGTTCGCTAGGCACAAAgtttgtaatc ... tgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagttgttgtagtctcgtgttatgtagctcaagttatgctcttctgttatgtagGTTGAGACAGAGTTTCTTCCTCTGTACACCAACCATGGTATAGGTCTCACTACCTGGAGCCCACTTGCATCTGGTGTGCTCACTGGTAAATACAACAAGG
                                       ctcttctgtt  CT-rich tract
                    ttatgta  TA-rich tract