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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTATTAAAAGGACGTAATGCATGGTACGGTCAAATGCTGGCAAAGGGTGAAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAGgtacttaatctgttagaacaaagccttgaaagaagtttgaaatgttttggtatctgttttgcttatgaggatgtgggatttttgttgaatag

Basic information

species Arabidopsis thaliana
transcript AT2G41540.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G41540.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G33340.1 (Glycine max), 5'ss of exon 4
CTTATTAAAAGGACGTAATGCATGGTACGGTCAAATGCTGGCAAAGGGTGAAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAGgtactt-----aatctgttagaacaaagccttgaaaga---agtttgaaatgttttggtatctgttttgcttatgaggatgtgggatttttgttgaatag
 ||| ||||||| ||||| |||||||| ||||| ||| | || ||||||||| |||    |||||||||||| ||||| || ||||| |||||||||||||||  |     ||| |   |      ||  |   || |   | | | || |  || ||| |     ||||   |  | ||||   | |  | |   ||  
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtatgttctgtaattttccacttattagtttcccaacacctattctaaattccttaggtgtgccaattgcactttggaatgtacaaatagtataatatgt

upper sequence: AT2G41540.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
CTTATTAAAAGGACGTAATGCATGGTACGGTCAAATGCTGGCAAAGGGTGAAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAGgtacttaatctgttagaacaaagccttgaaagaagtttgaaat----gttttggtatctgttttgcttatgaggatgtgggatttttgttgaatag----
 ||| ||||||| ||||| |||||||| ||||| ||| | || ||||||||| |||    |||||||||||| ||||| || ||||| |||||||||||||||  |    |  |    ||     | | || ||||   || |     ||||  |  |        || | |     |  | |   | | ||||      
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttcccaacacctattctaaattccttaggtcactttcgaatgtacaa

upper sequence: AT2G41540.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G31730.1 (Glycine max), 5'ss of exon 3
CTTATTAAAAGGACGTAATGCATGGTACGGTCAAATGCTGGCAAAGGGTGAAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAGgtacttaatctgttagaacaaagccttgaaagaagtttgaaatgttttggtatctgttttgcttatgaggatgtgggatttttgttgaatag----------
||| |||||||| |||||||| ||||| || || ||| | || |||||| || |||    |||||||||||| ||||| || ||||| |||||||||||||||  |    |  |    ||   |||  |      |   |  |  | || ||| |   |  ||  |||||       ||| |   |  |||           
CTTGTTAAAAGGTCGTAATGCTTGGTATGGCCAGATGTTAGCTAAGGGTCAATTAAGACCAGACATGGGTGACAGCATTAGTGGCAAAGGAATGATTCAGgtatatttcgtaatgtttcatgtcct--agtttcttccaagctcatatgctatgttcctgactcctgaggtgagccaattgtgtctttataatgtgaaagtt

upper sequence: AT2G41540.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv08s0007g09000.t01 (Vitis vinifera), 5'ss of exon 3
CTTATTAAAAGGACGTAATGCATGGTACGGTCAAATGCTGGCAAAGGGTGAAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAGgtact-----taatctgttagaacaaagcc-ttgaaagaagtttgaaatgttttggtatctgttttgcttatgaggatgtgggatttttgttgaatag
| | || ||||| || ||||| ||||| || |||||| | || ||||| ||| | |     ||||||||||||||||| || ||||||||||||||||||||| |     | ||   |||      | |  || ||    |     ||| ||||  | | ||   |  | || || |  |      ||  ||    ||
CCTGTTGAAAGGCCGCAATGCGTGGTATGGCCAAATGTTAGCCAAGGGGGAACTGAGCCTGGACATGGGTGATAGCATTAGTGGCAAGGGAATGATTCAGgtattggtcatgattctttacttggcaacagttcaactgggaaaacaatattttcttctttggaattgtcatcagaacctcttgcctt-attttccag

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|86076340|gb|DR372097.1|DR372097
EST:     GTGATAGCATAAGCGGCAAGGGAATGATTCAG                         GGTGTTTCTGCAGTGGGAGCATTTTACCAATTGCTTAGTCAATCAAGCTTA
genomic: GTGATAGCATAAGCGGCAAGGGAATGATTCAGgtacttaatc ... tgttgaatagGGTGTTTCTGCAGTGGGAGCATTTTACCAATTGCTTAGTCAATCAAGCTTA
EST: gi|86083325|gb|DR379084.1|DR379084
EST:     AAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAG                         GGTGTTTCTGCAGTGGGAGCATTTTACCAATTGCTTAGTCAATCAAGCTTA
genomic: AAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAGgtacttaatc ... tgttgaatagGGTGTTTCTGCAGTGGGAGCATTTTACCAATTGCTTAGTCAATCAAGCTTA