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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatcatattttgggttgtaaagaggacttttcattggtgaagaatatgtgactgaagcttctattctttccattgcag

Basic information

species Arabidopsis thaliana
transcript AT3G25840.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25840.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os12g44330.2 (Oryza sativa), 5'ss of exon 9
AATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatcat------------attttgggttgtaaagaggacttttc--attggtgaagaat----atgtgactgaagcttctattc----tttccattgcag
|||||  | ||||| ||||||||||| ||||||||| |||| || |  ||||| |||||||| |||||||| || || || ||  |  | ||||| || ||| |||  | |            ||||||   ||||   |  | | |||  | || |      |    ||   ||    | |   || |    |||   ||||||
AATGTGCTGAAGCTCTGTGATTTTGGCAATGCAATGCTTGCTGGAATGAACGAGGTTACACCTTATCTTGTGAGCCGTTTCTATCGTGCACCTGAGATAAgtgagttccttttctcgcacttcattttgttgtgtattcaatattcttcctactgttattctgtctccatactacatgtggtctgatgcacaatttttcttgcag

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA01G20810.1 (Glycine max), 5'ss of exon 11
AATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatcat------------attttgggttgtaaag-----aggacttttcat-tggtgaagaatatgtgactgaagcttctattctttccattgcag--------------
|||   || ||| ||||||| ||||||||||| |||||||| || ||||| ||||||||||| |||||||| |||||||||||  |  |||||||||| |||||||  | |            |||     ||   |||     |  | ||||| | |  |   |||||| | |  |  | || || | ||    || ||               
AATACTTTTAAGTTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGCTTTTATCGTGCCCCTGAAATCAgtaagttactttgcagtacagtaattgcatattcccaagtcctaaccatttttcttgtcattttgaatatttaatgg--gtttttactgttgggctttcaaacttttctatgcag

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G24820.2 (Glycine max), 5'ss of exon 11
AATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatcata--ttttgggttgtaaagaggacttttcattggtgaagaatatgtgactg--aagcttctattctttccattgcag--------
||||| || ||||||||||| ||||||||||| |||||||| || ||||| ||||||||||| |||||||| ||||| |||||  |  |||| ||||| |||||||  ||||  |||     |    |   |  ||||  ||| | ||       ||  ||  ||   | |   ||||  | ||           
AATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATCGTGCCCCGGAAATAAgtaagtcccatagatttcataatccctaactgtttttttcttgttcaatgtctcatggttgccaactgttttggcttttgaatgtttctatgcag

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G42220.1 (Glycine max), 5'ss of exon 14
AATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatcat-----------attttgggttgtaaag----aggacttttcattggtgaagaatatgtgactgaagctt-ctattctttccattgcag------------
||||| || ||||||||||| ||||| ||||| |||||||| || ||||| ||||||||||| |||||||| ||||| |||||  |  |||| ||||| |||||||  |||           ||||  | ||  | |     |     |||  ||  ||  ||||   | |  || ||   || || |  |  ||| |             
AATGTTTTGAAGCTTTGTGACTTTGGCAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATCGTGCCCCGGAAATAAgtaagttccattcattgctatgatttatgatttcataatcccaaactgtttttttcttgttgaatgcctcatggatgccaactgttttggcttttgaatgtttctatgcag

upper sequence: AT3G25840.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv01s0011g03350.t01 (Vitis vinifera), 5'ss of exon 9
AATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatcatattttgggttgtaaagaggacttttcattggtgaagaatatg-tgactgaagcttctattctttccattgcag-----------------------------------------------------------
|||||| | || || ||||||||||||||||| |||||| | || ||||| ||| ||||||| |||||||| || ||||||||  |  ||||||| || |||||||  ||| | | |     |   |  || || |      |||  |||||  |         ||   |  ||| |     |                                                            
AATGTCCTGAAACTCTGTGATTTTGGTAATGCCATGTTTTCTGGTAAAAATGAAATTACACCATATCTTGTGAGCCGCTTTTATCGTGCCCCTGAGATAAgtaagtcccat-tctcgaaccatcccgttgatttgtttgaaatgattaatataatcttctttagttaggtagtttgccaaataattatttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcag

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|124954695|gb|EL029771.1|EL029771
EST:     CGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTA                         TTCTGGGGCTCCACCTATGACCATCCGTTGGATATATGGT
genomic: CGAAGTTACACCGTATCTTGTTAGTCGCTTTTACAGATCCCCTGAAATTAgtaagtatca ... tccattgcagTTCTGGGGCTC-ACCTATGACCATCCGTTGGATATATGGT