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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAATTATAAGAGAAGAGTTTGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGgtaaacaacattttctctcattctttcatctcttaaacctactcataatgaccaatgaatgagtttcggttttggttttggatag

Basic information

species Arabidopsis thaliana
transcript AT3G21250.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G20780.1 (Glycine max), 5'ss of exon 12
AGAATTATAAGAGAAGAGTTTGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGgtaaacaacattttctctcatt---ctttcatctcttaaacctactcataatgaccaatgaatgagtttcggttt---tggttttggatag------------
  | | || ||| |||| ||| |||| || ||||| ||||| || || || ||||| |||||||| ||||||||||||||||||||||| || || | |||||        ||  | | | |   |  ||    | || || |      | | ||| ||  ||| | ||  || |   | || ||| ||              
CAAGTCATCAGACAAGAATTTTCAGAATGCACAGTTATAACGGTGGCTCACAGAGTTCCAACTGTAATAGACAGTGACATGGTCATGGTCCTATCCTATGgtatgttgttattattattaataggcactccgtgcctagacttg---gaagttacctatacatgtggttgagtgtaacttgtattgaatgatgcaaaatgttt

upper sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
-----------AGAATTATAAGAGAAGAGTT--TGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGg-taaacaacattttctctcattctttcatctcttaaa--cctactcataatgaccaatgaatgagtttcggttttggttttggatag
               ||      ||||  ||  |  | |  | |     ||   ||||| | ||    |     |||  | |||        |    | ||| |||     ||  |   |   ||   |  | ||   |    |||  | |   | |    ||||   || |||    ||   |||  ||  ||  | || 
ACAATGCCAATTATTTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTGATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaactgtaatagacagtgacatggtcatggtcctgtcttatgtta-

upper sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G01390.1 (Glycine max), 5'ss of exon 12
AGAATTATAAGAGAAGAGTTTGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGgtaaaca----acattttctctcattctttcatctcttaaacctactcataatgaccaatgaatgagtttcggttttggttttggatag-
  ||| || ||| |||| |||||  | || ||||| |||||||| || || || || |||||||| ||||| ||||||||||||||||| ||||| | |||||        |  |||   ||| || ||  || |  ||   ||| ||   |    || |   | |  ||   ||||  | |||   |  
CAAATAATTAGACAAGAATTTGCCAAATGCACAGTTATAACAGTGGCTCACAGGGTTCCAACTGTAATAGATAGTGACATGGTCATGGTCCTCTCCTATGgtatgtttttcatttttctcctcctttttagatataatacttctattctcta-attcactctgttacctttttttttcttgttgctaaag

upper sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G20770.2 (Glycine max), 5'ss of exon 10
AGAATTATAAGAGAAGAGTTTGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGgtaa----acaacattttctctcattctttcatctcttaaacctactcataatgaccaatg-aatgagtttcggttttggttttggatag
  ||| || ||| |||| |||| ||| || || || ||||| || || || || || |||||||| ||||| ||||||||||||||||| ||||| | |||||     |  || | |||| ||||| |||   | | |    |||||  || |  | | |  | | |||| |    ||  ||||  |   
CAAATAATTAGACAAGAATTTGTAGAATGCACGGTTATAACTGTGGCTCACAGGGTTCCAACTGTAATAGATAGTGACATGGTCATGGTCCTCTCCTATGgtatgttcattacttgttctttcattttttttccaccttttactacttctattctctagttcactcagttacctcatt--ttttaaag--

upper sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 22
AGAATTATAAGAGAAGAGTTTGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGgtaaacaacattttctctcattctt--tcatctcttaaac------ctactcataatgacc--aatgaatg---agtttcggtt---ttggttttggatag
|||||||| ||  | || ||     ||||||| ||||||||||| || || ||||| || || || ||||| ||||||||||||||||| ||||||| |||||  |||  |    ||  |  ||    ||  | |  |         |  |  || | |||  ||   |     | | ||||||   ||| ||||| |   
AGAATTATCAGGCAGGAATTCTTGAACTGTACGGTGATAACAGTAGCTCACAGAGTTCCCACAGTTATAGATAGTGACATGGTCATGGTCCTCTCTTATGgtatgcaat-tccaatccaagcctaagccagttttggagtattgggtttttggtattaaccccaacttacataaaatatcggttggtttgattttgtag--

upper sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0002g02440.t01 (Vitis vinifera), 5'ss of exon 10
AGAATTATAAGAGAAGAGTTTGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGgtaaacaacattttctctcattctt--tcatctcttaaac------ctactcataatgaccaa---tgaatgagtt-tcggtt---ttggttttggatag
|||||||| ||| | || ||  || | ||||||||||||||||| || || ||||| || ||  ||||||| || |||||||||||||| ||||||| |||||  |||  |    ||  |  ||    ||  | |  | |       |  |  |  | ||| |   |  || |  | ||||||   ||| ||||| |   
AGAATTATCAGACAGGAATTCTCAAATTGTACAGTGATAACAGTAGCTCACAGAGTTCCCACACTCATAGATAGCGACATGGTCATGGTCCTCTCTTATGgtatgcaat-tccaatccaagcctaagccagttttggagcattgggtttttggtgctaacccaacttacataaaatatcggttggtttgattttgtag--

upper sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 11
AGAATTATAAGAGAAGAGTTTGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGgtaaacaacattttctctc---attctttcatctcttaaacctactcataatgaccaa---tgaatgagtttcggtt---ttggttttggatag
|||||||| ||  | || ||  || ||||||||||||| ||||| || || ||||| ||||| ||||| |||||||||||||||||||| ||||||| |||||   ||   || | |||   |   ||      ||      |  | ||| ||| | |   |  || |     ||||   ||| ||||| |   
AGAATTATCAGGCAGGAATTCTCAAACTGTACAGTGATTACAGTAGCTCACAGAGTTCCAACAGTCATGGACAGTGACATGGTCATGGTCCTCTCTTATGgtatgaaattattccactccgcagatttggggtactgggttttgttgatattgagccagctttcataaacactggttggtttgattttgtag--

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|125202742|gb|EL217696.1|EL217696
EST:     GACAGTGACATGGTCATGGTTCTCTCTTTTG                         GTGATTTAGTAGAGTACAACGAGCCTTCGAAGCTAATGGAGACTGATTCTT
genomic: GACAGTGACATGGTCATGGTTCTCTCTTTTGgtaaacaaca ... ttttggatagGTGATTTAGTAGAGTACAACGAGCCTTCGAAGCTAATGGAGACTGATTCTT