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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatcaaatccttgaatgtaaaaagtggcttctttggaatctattttttgtatattggctgattttatgtcattctggttgaatttgcag

Basic information

species Arabidopsis thaliana
transcript AT3G13870.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 2
TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatg-tatcaaatccttgaatgtaaaaagtggcttctttggaatctattttttgtatattggctgattttatgtcattctggttgaatttgcag----------------
|| |||||||||||  | ||  | ||||| ||||| |||||| ||| ||||||||| |||||||| || ||||| || || |||||||||||||||||||||||| | |    |  ||   |  |  |  ||   | | ||   || ||   |  ||||||   |        | |||| |   | ||||                     
TTCAATGTTTCTGGATTGGAGAACTTCATGAAGGAAGTTAAAATGGGCGAATGTGGGCTTTCATATGCTGTTGTGTCAATAATGGGTCCACAAAGTAGTGgtatggtgttttttttttcctttcatcatttgctctatctgttttcaatgaataatatatt--ttatcccagcgccattgttcatcaattcctttttacatttttttccag

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G01230.1 (Glycine max), 5'ss of exon 2
TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatcaaatccttgaatgtaaaaagtggcttctttggaatctatttttt-gtatattggctgattttatgtcatt---ctggttgaatttgcag-------
|| ||||||| |||||||||  ||||||| |||||||| || ||||  |||||||| |||||||| || || || || || |||||||| |||||||||||||||         ||||  |    ||  |   |  |||   |||  || |   |   ||||| |  | | || || ||   |||  ||    ||          
TTCAATGTTTTTGGGGTTGAAAATTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCATATGCCGTAGTTTCTATAATGGGTCCTCAAAGTAGTGgtatgctct-----cttgtgtccttaaccttattgttttcccatcccttctcaagctaattggattttatgatttctttaacctgtctgtgcatgtgaggatctt

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 2
TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatcaaa---tccttgaatgtaaaaagtggcttc---tttggaatctatt---ttttgtatattggctgattt-tatgtcattctggttgaatttgcag
|| |||||||||||| ||||   |||||| |||||||| || ||||  |||||||| ||||| || || || || || || ||||||||||||||||||||||||          ||||| |   ||     |  ||||   | |  |    |||   |||| ||  ||   | |  | | |||    |||      |||    
TTCAATGTTTCTGGGCTTGAAAGTTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgctctctgttctccttaaccttattgttttccttcccttctcaagctaattggattttataatttctttaacctgtctgtgcacctgaggatcttt----

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G42650.1 (Glycine max), 5'ss of exon 2
TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatcaaatccttgaatgtaaaaagtggcttctttg-gaatctattttttgtatattggctgattttatgtcattctgg--ttgaatttgcag----
|| ||||||   ||| ||||  | ||||| || |||||||||||    |||||||| ||||| || || || || || |||||||||||||||||||||||||||  |      ||  | |        |    | ||   ||    |||| |||| || | |||  |  || |||| | ||   ||||   ||       
TTCAATGTTGGCGGGATTGAAAACTTCATGAAAGAGGTTAAATTAAGTGAATGTGGGCTTTCCTATGCCGTAGTTTCTATTATGGGTCCACAAAGTAGTGgtatgctttgtgatctcaatttcgtttcttattcttttcatgagcaaatttgttgtgtaattgcttctacta-gtcaatttgcacttgaggatgtgtatgt

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G02780.1 (Glycine max), 5'ss of exon 2
TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatcaaatccttgaatgtaaaaagtggcttctttggaatct-attttttgtatattggctgatttt-----atgtcattctggttga-atttgcag
|| |||||| | ||| ||||  | ||||| || |||||||||||    || ||||| ||||| || || || || || |||||||||||||||||||||||||||  ||     ||  | |        |    | ||   || || |||| ||     |    |     |     ||||   |||  || | || |  | 
TTCAATGTTGCCGGGATTGAAAACTTCATGAAAGAGGTTAAATTAAGTGAGTGTGGGCTTTCCTATGCCGTGGTTTCTATTATGGGTCCACAAAGTAGTGgtatgcttcgtgatctcaatttcgtttcttattattttcataagctgatttgttaccagtcaatttgcacttgaggatgtgtatcttattaatatatata-

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 2
TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatca--aatccttgaatgtaaaaagtggcttctttggaatctattttttg---tatattggctg-attttatgtcattctggttgaatttgcag--
|||||||||  |||  ||||  |||| || |||||||| ||| |||  ||||||||||||||||| || || || || || ||||| ||||| |||||||||||| |     ||||| ||      |  | |   ||  |||   | ||||   ||    || || | || |  |||        |  |  ||||| ||   
TTTAATGTTCATGGACTTGAAAATTTTATGAAGGAGGTGAAACTGGCTGAATGTGGTCTTTCATATGCTGTAGTTTCCATCATGGGCCCACAGAGTAGTGgtatgaactgctaatccatgcccaatattatta--tttgttgtgttttattaagtgaggcatttttgttggagattacaattgagttatccaattttcactt

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|152037947|gb|BP803690.2|BP803690
EST:     CTGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTG                         GGAAGAGTACGCTCTTGAATCATT-GTTTGGAAACAACTTTAGAGAAATGG
genomic: -TGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatca ... gaatttgcagGGAAGAGTACGCTCTTGAATCATTTGTTTGGAACCAACTTTAGAGAAATGG
EST: gi|164227580|gb|ES178450.1|ES178450
EST:     CTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTG                         GGAAGAGTACGCTCTTGAATCATTTGTTTGGAACCAACTTTAGAGAAATGG
genomic: CTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatca ... gaatttgcagGGAAGAGTACGCTCTTGAATCATTTGTTTGGAACCAACTTTAGAGAAATGG