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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag

Basic information

species Arabidopsis thaliana
transcript AT1G79930.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G361605_T02 (Zea mays), 5'ss of exon 4
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
|||||| ||||| || ||||||||||||||||||||  || | ||||||||  | |||||||| || ||||| || || || ||||| || |||||||||||  |  |  ||| | |     |   | ||    | ||       ||  |  ||  | |||   |  || | | |||   |  ||    | || |   ||  |||                    
GGAGCCAAGGCGAACCATGAATGCAAGTGAGTGTGTTGCACGAGGATGTGCTCTTCAGTGTGCTATGCTCAGCCCCACTTTCAAAGTGCGGGAATTCCAGgtt-tgagctcatctttttatctggtttaa----gctaccgaatggttatattattccactgccggtctgtcacactaatggatactaaaataattgcatactga--------------------

upper sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 2
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
|||||| || || || ||||||||||||||||||||  |  | ||||||||  | |||||||| |||||||| || || || ||||| || ||||||||||||   | | | ||     |||||  | | | |   | |||| |  ||||    |     | ||      |||||||  ||| ||    |    | | | ||   | |||  ||  |        
GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctcctta-----gcttaccttagtatatctgttttaagctact----atgggttgga------ttatact--agactagtctatatcttaaactgctgtctatgcttgct--------

upper sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtac-ttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
|||||| ||||||||||||||||| |||||||||||  | ||||| ||||| ||||||||||| ||||||||||| || |||||||| || || || |||||||       || |   | |    |||    ||  || ||| |  | | || |    |  |  | || |       ||  |   |  | |  |||  | |||| ||||                 
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaa-------attttcccccggctgtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatgg--acttcagcagttgttttgttattt-----------------

upper sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G01750.1 (Glycine max), 5'ss of exon 2
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
|||||| ||||||||||||||||| |||||||||||  | ||||| ||||| ||||||||||| |||||||| || || |||||||| || || || |||||||       | || | | ||         | | ||||  |  | ||    ||  |||   | ||||| ||       ||||  | | || | ||||    |     ||||||| || | ||  
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGCTGTGCATTGCAGTGTGCAATTCTCAGCCCAACTTTTAAAGTACGGGAGTTTCAGgtaa-------aaattttccct---------gccattataatgttttaaaattattcaatatg-gaactgtt------cagatctttttacgaatcatggacttcagcattttttattttttt--

upper sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 1
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
|||||| ||||||||||||||||| |||||||||||  | ||||||||||| ||| | ||||| ||||| ||||| || || ||||| || ||||| |||||||   ||   | | | || |  | |     ||  |||||   |  | ||        | | || ||  | |||  | |   | |  |  | ||     |||   ||  || ||||  |     
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCTAGGGGATGTGCGTTGGAATGTGCAATTCTTAGTCCAACGTTCAAAGTACGAGAATTTCAGgtaa--agt---tttttgcgttggattgt---tctctatttcatttcaatt--------cacaaggaccctcatatgcca--ctgttggttttgtaggcctgt---ttgcttattgtcttt----

upper sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G22100.1 (Glycine max), 5'ss of exon 1
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
|||||| ||||||||||||||||| |||||||||||  | ||||| ||||| ||| | || || ||||| ||||| || || ||||| || ||||| |||||||  | | ||||  |  | ||         ||  |||||   |  | ||   |        || ||  | |||| | |   | |  |  | || |  |||    ||  || ||||  ||    
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCTAGGGGCTGTGCGTTGGAATGCGCAATTCTTAGTCCAACGTTCAAAGTACGAGAATTTCAGgtaaa-gtttcatacgttggattgt-------tctctatttcatttcaattcaga--------aggaccctcatacgcca--ctgttggttttgtaagcttgc---ttgcttattgtcttc----

upper sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv09s0002g04680.t01 (Vitis vinifera), 5'ss of exon 1
GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtacttgtaagcaactcgaga-acttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
||| || |||||||||||||||||||||||||||||| | | ||| |||||  | || ||||| ||||| || || || |||||||| || || || |||||||      | | || ||  |    |  || |  || | || || || |     | ||   | |   ||||| |||    |  |||     ||    |  | || ||                  
GGAACCTAGGCGGACAATGAATGCAAGTGAGTGTGTGGCCAAGGGCTGTGCTCTACAATGTGCAATTCTTAGCCCAACATTTAAAGTGCGAGAGTTTCAGgtaa--aactcctttcaac-ttaggttgtatcttattttctttatttattgaagtgaaatatgtgttgcttttttac----ggctattgagttaaatttcct-tggtt------------------

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|301501344|gb|HO206884.1|HO206884
EST:     CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAG                         GTTCATGAGAGCTTCCCTTTCTCAATTTCTCTCGCTTGGAAAGGAGCAGCT
genomic: CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtg ... gttctcttagGTTCATGAGAGCTTCCCTTTCTCAATTTCTCTCGCTTGGAAAGGAGCAGCT
EST: gi|301501404|gb|HO206944.1|HO206944
EST:     CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAG                         GTTCATGAGAGCTTCCCTTTCTCAATTTCTCTCGCTTGGAAAGGAGCAGCT
genomic: CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtg ... gttctcttagGTTCATGAGAGCTTCCCTTTCTCAATTTCTCTCGCTTGGAAAGGAGCAGCT
EST: gi|47829158|gb|CK118842.1|CK118842
EST:     CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAG                         GTTCATGAGAGCTTCCCTTTCTCAATTTCTCTCGCTTGGAAAGGAGCAGCT
genomic: CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtg ... gttctcttagGTTCATGAGAGCTTCCCTTTCTCAATTTCTCTCGCTTGGAAAGGAGCAGCT