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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTATTCGATCAAACCAATCTTTGAATGATGATCATTGTCAGgtacggtttttactctgctatatttgatactatggttgatttaatcacaagtgattcactttttcttcttttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G11330.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G11330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os10g38950.1 (Oryza sativa), 5'ss of exon 3
GGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTATTCGATCAAACCAATCTTTGAATGATGATCATTGTCAGgtacggtttttac----tctgctatatttga-tactatggttg------atttaatcacaagt---gattcactttttcttcttttgcag--------------------------------------------------------------------------------------------
 ||  | ||   ||||||||| || |||| |||||| |||||||||||||| |||||||| || || ||||| ||| | |||| |||||| || || |||||  | |  || |    | |||| |  |  |  | | || |||      || ||  || |  |    || ||| || | | |||| |  |                                                                                            
AGACAACTTTAATGATGTTTACATTGTTTCTGAGTTGATGGATACTGATCTCCATCAGATCATACGCTCAAATCAACCATTGACTGATGACCACTGCCAGgtttgttgcttccagcttgtgctttgctgaaacattttgcttgcagaaaatctagacagagatttccatgcaccttgt-tcctttggtcgctatatgttttcttcatcctatccatatttcagcttaacattctcttgtttatctggtttaataatcacaagtgacatgttttgcattgcag

upper sequence: AT4G11330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G02420.1 (Glycine max), 5'ss of exon 3
------GGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTATTCGATCAAACCAATCTTTGAATGATGATCATTGTCAGgta-----cggtttttactctgctatatttgatactatggttgatttaatcacaagt---gattc--actttttcttctt-ttgcag-----------------------------------------------------------------------------------------------
      ||| |  || | ||||||||| || |||| |||||| ||||| ||||||||||||||||||||||| ||  ||||| || | |||||| | || ||||||||      |  ||| || | |    | ||   |  | |  |    ||    |||  |    ||||  | | || |||||| |||||                                                                                                
CAGAAAGGATGCCTTTGATGATGTTTACATTGTTTATGAGTTGATGGACACTGATCTTCATCAGATTATTCGTTCTGACCAACCTCTTAATGAT-ACCACTgtcaggtttccttctatttatattatttcgttttcagttttctattcatattctatacagttttgtattcagattattccttcttattgcataagggctgttaattaagttttgacttgtgcttttcttttgaaattaagcatggtatccatgtttcgtgaaacttgtgcagtactttttatatcag

upper sequence: AT4G11330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G43100.1 (Glycine max), 5'ss of exon 3
GGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTATTCGATCAAACCAATCTTTGAATGATGATCATTGTCAGgtacggtttt--tactctgctatatttgatactatggttgatttaatcacaagtgattcactttttcttcttttgcag-----------------------------------------------------------------------------------------------------
||| |  |||  ||||||||| || |||| ||| || ||||| ||||||||||||||||||||||| ||  ||||| || | || ||||| || ||||||||    || |  |  | | |||||    | |  ||  || |    || | ||  ||  ||  | || |   | |                                                                                                         
GGATGCCTTCAATGATGTTTACATTGTTTATGAATTGATGGACACTGATCTTCATCAGATTATTCGTTCTGACCAACCTCTTAACGATGACCACTGTCAGgtttccttctattcatattctatacagaaaaaaatctttcaagcgatta-aatcgacacatgtattttaaatatatgaaatagattcattcttattgcatgaggggtgttgttaagttttgatttgttcttttcttttgaaattaagcttggtattgatgtttcgtgaaacttgtgcag

upper sequence: AT4G11330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv02s0025g00270.t01 (Vitis vinifera), 5'ss of exon 3
GGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTATTCGATCAAACCAATCTTTGAATGATGATCATTGTCAGgtacggtttttact-ctgctatatttgatactatggttgatttaatca-caagtgattcactttttcttcttttgcag-----------------------
||||  ||||  |||||| || || |||| ||| || ||||| ||||||||||||||||| ||| | || ||||||||  | |  ||||||||||||||||||      | |||  || |     |  |||  | ||   | |||| |   ||   |   ||| |   |  | ||||                        
GGAAACTTTCAATGATGTCTACATTGTTTATGAATTGATGGACACTGATCTTCATCAGATCATTTGTTCTAACCAATCCCTCACCGATGATCATTGTCAGgtatctcactgactattgttggtcatcttacc-ttgtcattataattaatgagctctaaccttgtaacttatctgcaatgagtcttgactgttgtccttaa

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|125025671|gb|EL097940.1|EL097940
EST:     TTCATCAGATTATTCGATCAAACCAATCTTTGAATGATGATCATTGTCAG                         TACTTCTTGTAT
genomic: TTCATCAGATTATTCGATCAAACCAATCTTTGAATGATGATCATTGTCAGgtacggtttt ... tcttttgcagTACTTCTTGTAT