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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTTCTTTCACGTTCTTTTGCAAATTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaaggcctttcttttactggcgtttctctaggttttatgttgtttttaaaatgtgttgttgtctttcttattag

Basic information

species Arabidopsis thaliana
transcript AT1G12820.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G12820.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G05500.1 (Glycine max), 5'ss of exon 1
ACCTTCTTTCACGTTCTTTTGCAAATTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaaggcctttcttttactgg---cgtttctctaggttttatgttgtttttaaaatgtgttgt-tgtctttcttattag--------------------
| || || || || |||||  || | |||||||||||||||||||||||||||||||||||  ||||||||||| | ||| |  | || || |||||||||| |      ||  |||  ||    |  | || |    ||   || | | | |   | |||||     |||  || || |                    
AGCTACTCTCTCGGTCTTTCACACACTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTCTCCACTGATGGCCTTGCTGCTTTAGCTGCAAATTGCAGgtgagaatgatttgtttgttgtgttcaatcctgtgttgttggagtagatgtaagtgtttgttgcacaacttattttttggtttgtgggttttgtttgttg

upper sequence: AT1G12820.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G07240.1 (Glycine max), 5'ss of exon 1
ACCTTCTTTCACGTTCTTTTGCAAATTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaag------gcctttcttttactggcgtttctctaggttttatgttgttt-ttaaaatgtgttgttgtctttcttattag-------------------
| || ||||| ||||||||    |||||||||||||||||||||||||| ||||||||||| ||||| |||||  | ||  | || || || ||||| |||| |            |   |||| ||| ||||  || |      || || |  || |  | ||||  ||  |||   |  ||                   
AGCTACTTTCGCGTTCTTTCATGAATTTCAAGTCTTTGGTTCTTGTTAGTTGTGAAGGGTTCACCACCGATGGACTTGCAGCTATAGCTGCAAATTGTAGgtgagatgagtaaatgtgtgtttattggagtttgacttgtcaacttgctgatcgttcaggtctgtt--tgggttttggaagagcactaattgaaggaatcta

upper sequence: AT1G12820.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G26200.1 (Glycine max), 5'ss of exon 1
ACCTTCTTTCACGTTCTTTTGCAAATTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaag-----gcctttcttttactggcgtttctctaggttttatg---------ttgtttttaaaatgtgttgttgtctttcttattag----------
| |||||||| |||||||| |  |||||||||||||||||||||||| | ||||||||||| ||||| || ||  | ||  | || || || ||||| |||| |       | ||||  || | |    | |  ||    ||||||         |  |||  |     | |||   | || ||| | |           
AGCTTCTTTCCCGTTCTTTCGTGAATTTCAAGTCTTTGGTTCTTGTTCGTTGTGAAGGGTTCACCACCGAAGGACTTGCAGCTATAGCTGCAAATTGTAGgtgagataagtgactttggttcaatataatgttgctgctgtttatgaaaccaccatgatttcaagcgattattggattgttacttgtcaatttgttcatg

upper sequence: AT1G12820.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G27280.2 (Glycine max), 5'ss of exon 1
ACCTTCTTTCACGTTCTTTTGCAAATTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaaggcctttcttttactggcgtttctctaggttttatgttgtttttaaaatgtgttgttgtctttcttattag-------------------------
| || ||||| ||||||||  || | |||||||||||||||||||||||||||||||||||  | || |||||| | ||| | || || || |||||||||| |       |  |||  | |  |   |||     || | | |||| |    | ||||  ||   || | ||                            
AGCTACTTTCTCGTTCTTTCACACACTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTCTCTACCGATGGCCTTGCTGCTATAGCTGCAAATTGCAGgtgagaatgagttgtttgttcggttcaatctta-cgttgtttggtttatgggttttgtttgtgcaattttgatggttgtgttttggaggttgtatggttga

upper sequence: AT1G12820.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv14s0068g01330.t01 (Vitis vinifera), 5'ss of exon 2
ACCTTCTTTCACGTTCTTTTGCAAATTTCAAGTCTTTGGTTCTTGTTAGCTGTGAAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaa----ggcctttcttttactggcgtttct---ctaggttttatgt-tgtttttaaaatgtgttgt------tgtctttcttattag----------
| || ||| | || || || |  |||||||||||| ||||| | || |||||||||||||||||||| |||||  | ||  || |||| || |||||||||||      |||  ||| |||  | |  |   |   ||||  ||| ||  | |||||| ||  |||||       ||||  | | |||            
AGCTGCTTGCTCGATCGTTCGTGAATTTCAAGTCTCTGGTTTTAGTCAGCTGTGAAGGGTTTACCACCGATGGACTTGCAGCCGTTGCTGCAAATTGCAGgtaggagctggctgttcattttttagtttactttagctagtatttttgcatatttttataagttgttgcctcttctgtccctttcatttatttgttttta

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|125103267|gb|EL157737.1|EL157737
EST:     AAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAG                         GCATCTTCGTGAGCTGGACTTG
genomic: AAGGGTTTACCACTGATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaaggcct ... ttcttattagGCATCTTCGTGAGCTGGACTTG
EST: gi|125267996|gb|EL282081.1|EL282081
EST:     GATGGCTTAGCTTCCATTGCCGCTAATTGCAG                         GCATCTTCGTGAGCTGGACTTGCAAGAGAATGAGATTGATGATCATAGAGG
genomic: GATGGCTTAGCTTCCATTGCCGCTAATTGCAGgtaaaggcct ... ttcttattagGCATCTTCGTGAGCTGGACTTGCAAGAGAATGAGATTGATGATCATAGAGG