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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAGgtttgcatagatctttcttagagatcatctaaaagtgcaagctctagaaattgatattgcataagaatcatcaaacttgcaatccaagaaatccaaaatttacatatgagctttgatcttggtactaaatatggctttgccggtgaacgtttcag

Basic information

species Arabidopsis thaliana
transcript AT2G46860.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G46860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os04g59040.3 (Oryza sativa), 5'ss of exon 6
GAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAGgtttgcatagatctttcttagagatcatctaaaagtgcaagctctagaaattgatattgcataagaatcatcaaacttgcaatccaagaaatccaaaatttacatatgagctttgatcttggtactaaatatggctttgccggtgaacgtttcag
|| || ||  |||| || |  ||||||||||||||||| |||||  | |||||||||||||| |||||        || |||  ||  | ||   |   ||   | |     ||||  ||   ||||   |  |||      |||   |        |      |||||  | ||  || ||| |||  |  |                            
GAGCCTGTTATTCCTGGTTCCTTCCTCCGTGCTAGAGCAATTGGCCTTATGCCCATGATTGACCAGgt--------atattttctactgttctgtttgtagcaaagg-----gaaaaagac-ctgcacgggt-tcactctttttgtttt-------gttttttttttactgacgatattggattttgtgatcag---------------------------

upper sequence: AT2G46860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g64670.1 (Oryza sativa), 5'ss of exon 5
GAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAGgtttgcatagatctttcttagagatcatctaaaagtgcaagctctagaaattgatattgcataagaatcatcaaacttgcaatccaagaaatccaaaatttacatatgagctttgatcttggtactaaatatggctttgccggtgaacgtttcag
|| |||||| ||||||| || || ||||| ||||| ||||| ||| | ||||||||||| ||||||||       | |  | |   |    ||| |  ||          || ||||| ||  |  |     |   || | ||||  | | |    | | |||  ||  ||  ||                                              
GAGCCAGTGATTCCCGGCTGCTTTCTCCGAGCTAGGGCCATCGGACTCATGCCCATGATCGATCAGgtc------ggttctaccccgcatccattttcaa----------tacaaattcatcgtcaaccgcgac--tccagcttg--accgattggagctaaatcttcaatgagacag-------------------------------------------

upper sequence: AT2G46860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G45050.1 (Glycine max), 5'ss of exon 5
GAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAGgt-ttgcatagatc--tttcttagagatcatctaaaagtgcaagctctagaaattgatattgcataagaatcatcaaacttgcaatccaagaaatccaaaatttacatatgagctttgatcttggtactaaatatggctttgccggtgaacgtttcag
|| ||||| ||||| ||||||||||| || || || ||||||||| | ||||||||||||||   |||  || ||  ||   || |||    | |   | |||        |     |||    | | || |   |   |   | |  || |      ||  ||                                                            
GAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCAAGGGCCATTGGACTGATGCCCATGATTGACGGGgtactgaattaatttattgctttcttagccaatgaaaccaaccatttccacaataacaaatacaaatataatgtggtattgacatttggctcaacacag-----------------------------------------------------------

upper sequence: AT2G46860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G01960.1 (Glycine max), 5'ss of exon 4
GAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAGgtttgcatagatctttcttagagatcatctaaaagtgcaagctctagaaattgatattgcataagaatcatcaaacttgcaatccaagaaatccaaaatttacatatgagctttgatcttggtactaaatatggctttgccggtgaacgtttcag
|| || || |||||||| |||||||| || || || ||||||||||| ||||| |||||||| ||||| |  ||   |   ||||  || | ||  | |  |||||         |   || |   | ||  || | |||  ||   |||  |   |  ||                                                            
GAGCCTGTTCTTCCCGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAGgtatatatttttggctcttt-agctgataaacagttgcaattctgttccaaccat-tgagacaatgattaacaagttt---atcttattgacacag-----------------------------------------------------------

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|19878118|gb|AU238949.1|AU238949
EST:     GATGTTTNCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG                         GGAGAGAAAGACGACAAAANCATA
genomic: GATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAGgtttgcatag ... aacgtttcagGGAGAGAAAGACGACAAAATCATA