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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAGCAACTATCATGGGTCCAGCAGATAGCCCGTTTGCCGGAGGTGTGTTTCTTGTTACCATTCACTTCCCACCAGATTACCCTTTCAAGCCACCAAAGgtaacagaagttttttgttttttgttatgtttatttgtgtagcttaatgaatttgttcatccacaccattatgatttagagagagtgttcaatcaagtaggctttttgtggcaataaaccttcattgtttatgatgcag

Basic information

species Arabidopsis thaliana
transcript AT5G56150.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56150.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G102471_T04 (Zea mays), 5'ss of exon 3
GCAAGCAACTATCATGGGTCCAGCAGATAGCCCGTTTGCCGGAGGTGTGTTTCTTGTTACCATTCACTTCCCACCAGATTACCCTTTCAAGCCACCAAAGgtaa---cagaagttttttgttttt--tgttatgtttatttgtgtagcttaat-----gaatt-tgttcatccacaccattatgatttagagag----agtgttcaatcaagtaggctttttgtggcaataaaccttcattgtttatgatgcag
|||||| || |||||||| ||  | || ||||| ||||| || || || ||  | || | ||||||||||||||| |||||||||||||||||||||||||||    |   | |||||  ||| |  ||  |  | ||  ||| ||  |  ||     || ||    |  | || |   | |   || | | ||    | ||||  |    | ||   |  | ||   ||   |     |  ||    |   ||
GCAAGCGACCATCATGGGGCCTTCGGACAGCCCATTTGCAGGTGGGGTATTCTTGGTGAACATTCACTTCCCACCGGATTACCCTTTCAAGCCACCAAAGgtattttctctaatttttgatttctaatgccacctctacctgtatatttagattcctagagttacaattgtgcatatggtaacttttgaaacagttacaatgttttaatgtgaaga--tgatatgcttatctgcaggtgtctttccgcaccaag

upper sequence: AT5G56150.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G102471_T03 (Zea mays), 5'ss of exon 2
GCAAGCAACTATCATGGGTCCAGCAGATAGCCCGTTTGCCGGAGGTGTGTTTCTTGTTACCATTCACTTCCCACCAGATTACCCTTTCAAGCCACCAAAGgtaa---cagaagttttttgttttt--tgttatgtttatttgtgtagcttaatgaatttgttcatccacaccattatgatttagagagagtgttcaatcaagtaggctttttgtggcaataaaccttcattgtttatgatgcag
|||||| || |||||||| ||  | || ||||| ||||| || || || ||  | || | ||||||||||||||| |||||||||||||||||||||||||||    |   | |||||  ||| |  ||  |  | ||  ||| ||  |      |||  |  |   |||  ||| ||   ||  |  | | || || ||  ||   | ||| |      ||      || | ||||  |||||
GCAAGCGACCATCATGGGGCCTTCGGACAGCCCATTTGCAGGTGGGGTATTCTTGGTGAACATTCACTTCCCACCGGATTACCCTTTCAAGCCACCAAAGgtattttctctaatttttgatttctaatgccacctctacctgtatattt----agattcctagagttaca--attgtg-catatggtaacttttgaaacagttacaatgttt-taatgtgaagatgatat-gcttatc-tgcag

upper sequence: AT5G56150.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G18310.1 (Glycine max), 5'ss of exon 3
GCAAGCAACTATCATGGGTCCAGCAGATAGCCCGTTTGCCGGAGGTGTGTTTCTTGTTACCATTCACTTCCCACCAGATTACCCTTTCAAGCCACCAAAGgtaacagaagttttttgttttttgttatgtttatttgtgtagcttaatgaatttgttcatccacaccattatgatttagagagagtgttcaatcaagtaggctttttgtggcaataaaccttcattgtttatgatgcag
|||||| || || ||||||||| | || || || | ||| || ||||| || || || ||||||||||||||||||||||| || || |||||||||||||||||  |       |     || ||   |  |||   ||| |||  |     ||||  |  | |     ||   ||| ||    | || ||   | ||    |                                   
GCAAGCTACAATTATGGGTCCAACTGACAGTCCTTATGCTGGTGGTGTATTCCTGGTGACCATTCACTTCCCACCAGATTATCCATTTAAGCCACCAAAGgtaactaactaggcctaaagcttcttg-atggattcaagta-cttgctatgcgtgttactttataa-gcaatttcttatagga--tattgaaatcaatatatata----------------------------------

upper sequence: AT5G56150.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv19s0015g01190.t01 (Vitis vinifera), 5'ss of exon 3
GCAAGCAACTATCATGGGTCCAGCAGATAGCCCGTTTGCCGGAGGTGTGTTTCTTGTTACCATTCACTTCCCACCAGATTACCCTTTCAAGCCACCAAAGgtaacagaagtttt-ttgttttttgttatgtttatttgtgtagcttaatgaatttgttcatccacaccattatgatttagagagagtgttcaatcaagtaggctttttgtggcaataaaccttcattgtttatgatgcag
|||||||||||| |||||||||   || ||||| || || |||||||||||||| ||  |||| ||||||||||| |||||||| ||||||||||| ||||||||||||       ||| |||||||   |   |  ||||  || | ||   | ||   |   ||    | | |   |     | || |  |  ||  | ||                                     
GCAAGCAACTATTATGGGTCCAAGTGACAGCCCTTTCGCTGGAGGTGTGTTTCTGGTGTCCATCCACTTCCCACCGGATTACCCATTCAAGCCACCCAAGgtaacagaaaaaaaactgtgttttgtt---tccctgagtgtgactcagtg---tggtctctatgcattgatgt-acccaagttcattgctacactaaa-atgcaagga--------------------------------

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|301501987|gb|HO207527.1|HO207527
EST:     TTCTTGTTACCATTCACTTCCCACCAGATTACCCTTTCAAGCCACCAAAG                         GTTGCCTTCCGGACCAAGGTTTATCACCCAAACATCAACAGTAATGGAAGT
genomic: TTCTTGTTACCATTCACTTCCCACCAGATTACCCTTTCAAGCCACCAAAGgtaacagaag ... tatgatgcagGTTGCCTTCCGGACCAAGGTTTATCACCCAAACATCAACAGTAATGGAAGT