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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGTATACGAAAAGGGATCCCTGATTGCTTACGAGGTCTTGTTTGGCAGTTAATCTCAGGAAGTCGAGACCTTTTGCTTATGAATCCTGGTGTTTATGAGgtaatcttcgccgtttatatccttacattgtttcttctctgagtcatattctgatcatctatcgattttcctatgaag

Basic information

species Arabidopsis thaliana
transcript AT3G02460.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 5'ss of exon 3
GCGTATACGAAAAGGGATCCCTGATTGCTTACGAGGTCTTGTTTGGCAGTTAATCTCAGGAAGTCGAGACCTTTTGCTTATGAATCCTGGTGTTTATGAGgtaatcttcgccgttt--atatccttacattgtttcttctctgagtcatattctg-atcatctatcgattttcctatgaag-------------------------------------------------------------------------------------------
  | ||| | ||||| || ||||||||| |  |||| ||||||||||||||||| ||||| ||  | ||||||||||| ||||| ||||| ||||||||||||    |  |  ||   | |    | | |    |  | | ||    || |||   || || | |  | ||||   ||                                                                                              
AAGAATAAGGAAAGGAATTCCTGATTGCCTTAGAGGACTTGTTTGGCAGTTAATTTCAGGCAGCAGGGACCTTTTGCTAATGAACCCTGGGGTTTATGAGgtacctataacaattgtgaaagaactgcttgccctgatttttgttgaatgttccctattattttttaactttctgttgtcttagtagttatttctaaattatcaggatattgtcttaagagtcatacatatcttgtcaacattattacatttctatactattttttggacag

upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G07090.1 (Glycine max), 5'ss of exon 2
GCGTATACGAAAAGGGATCCCTGATTGCTTACGAGGTCTTGTTTGGCAGTTAATCTCAGGAAGTCGAGACCTTTTGCTTATGAATCCTGGTGTTTATGAGgtaatcttcgccgtttatatccttac--attg---tttcttctctgagtcatattctgatcatctatcgattttcctatgaag-----------------
||||||| | ||||| || |||||||||||| | || ||||||||||| || || || |||||||||||||| ||||| ||||| ||||| ||||||||||||||        ||||||   | |   ||||   | | || | |     | ||| | |      | |  |  | | |||                    
GCGTATAAGGAAAGGAATTCCTGATTGCTTAAGGGGCCTTGTTTGGCAATTGATATCTGGAAGTCGAGACCTGTTGCTGATGAACCCTGGAGTTTATGAGgtaatgaatttaatttatactttgaaaaattgagatatattttgtagaataaattttaagatatgaacagtgattcaatgcttgtctatcgtttgttatg

upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G05360.1 (Glycine max), 5'ss of exon 3
GCGTATACGAAAAGGGATCCCTGATTGCTTACGAGGTCTTGTTTGGCAGTTAATCTCAGGAAGTCGAGACCTTTTGCTTATGAATCCTGGTGTTTATGAGgtaatcttcgccgtttatatcctt---acattgtt---tcttctctgagtcatattctgatcatctatcgattttcctatgaag----------------
||||||| | ||||| || || ||||| ||| | || ||||||||||| || || || |||||||||||||| ||||| ||||| ||||| ||||||||||||||   |    ||||||   ||   | |||||    | || | |     || || | | |    |||  |  |  | ||  |                
GCGTATAAGGAAAGGAATTCCCGATTGTTTAAGGGGCCTTGTTTGGCAATTGATATCTGGAAGTCGAGACCTATTGCTGATGAACCCTGGAGTTTATGAGgtaattaacttaatttatactgttgaaaaattgtgatatattttgtagaatattttttaagctatgatcagtgcttgtctgttgtttgttatagttcacc

upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 3
GCGTATACGAAAAGGGATCCCTGATTGCTTACGAGGTCTTGTTTGGCAGTTAATCTCAGGAAGTCGAGACCTTTTGCTTATGAATCCTGGTGTTTATGAGgta------------atcttcgccgtttatatccttacattgttt---cttctctgagtcatattctgatcatctatcgattttcctatgaag-------
 |||||| ||||||| || |||||||| ||| | || |||||||||||||| |||||||||||||| ||||| ||||| ||||| ||||| ||||||||||||            || ||| |  || | |   | || ||| ||    || |||   |  | ||   ||  | |||  |||    |||  |        
ACGTATAAGAAAAGGAATTCCTGATTGTTTAAGGGGACTTGTTTGGCAGTTGATCTCAGGAAGTCGTGACCTCTTGCTGATGAACCCTGGAGTTTATGAGgtatacctttttcttattttctcatttcaaaaggtaaccttggttagatttttctagattttttttatatgctatatttattgctttatttatcttcatt

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|125327193|gb|EL341273.1|EL341273
EST:     CTTATGAATCCTGGTGTTTATGAG                         CTAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGA
genomic: CTTATGAATCCTGGTGTTTATGAGgtaatcttcg ... tcctatgaagC-AATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGA
EST: gi|125247503|gb|EL261588.1|EL261588
EST:     CTTATGAATCCTGGTGTTTATGAG                         CAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGAC
genomic: CTTATGAATCCTGGTGTTTATGAGgtaatcttcg ... tcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGAC