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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgagctgctttatcttgatttttttcgtctttgagcag

Basic information

species Arabidopsis thaliana
transcript AT1G13320.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 5'ss of exon 4
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaatgtgtgaatatgataaaaaaattctattga-tgagctttatgggaaagctgtaag-gcagatatgtatgagctgcttta---tcttgatttttttcgtc-tttgagcag----------------------------------------------------
  | || ||||| ||||| || |||||||||||||||||||||||||| || || || ||||| ||||| || ||||| || |||||||||||||| ||||||||| |        |  || ||    | |   ||  | |     | |     ||  | ||   ||||| ||  || || ||||  |   || ||||  |    ||   ||  |  |                                                    
ACGCTTGTTGGCAGTTGAAGGCTGTGCTGCTCTTGGGAAATTGTTGGAACCACAAGATTGTGTAGCACATATCCTTCCAGTTATTGTCAATTTCTCCCAGgtaaatta-cacccctacttggtacctcagtgtcatctacttgatatcacatataatatttatttgcagacattcattagttgctagaggttcctgatgctccgagttgcttctgttgtatgtgttaccataattatgacatcttttactctctgtaactcattaaatag

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G122135_T01 (Zea mays), 5'ss of exon 4
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaat---gtgt-gaatatgataaa------aaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatg-agctgctttatcttgatttttt-------tcgtctttgagcag-------------------------------------------------------------------
  | || ||||||||||| ||||||||||||||||| |||||||||||||| || || ||||| || ||||||||||| || |||||||||||||| |||||| ||   |    ||| | |    ||| |      |  |    |||      |||| |||  |   | |  || ||| |||| |  || ||||  |  |||||  |||       ||| || | ||                                                                      
GCGTTTGTTGGCTGTTGAAGGTTGTGCTGCTCTTGGTAAATTGTTGGAGCCACAAGATTGTGTAGCTCACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggaccctatacattttgcagcaagtaatttgctttctttgtggatatattattggg-agacatgtttttagttgctagaggttgataatttctcggagtcgcctcttagttttgcaacttgctgcagttcagtgcattaccgctgataaatgctacttgcatatactcgctttgtttag

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 4
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgta------------------------aataaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgag-----ctgctttatcttgatttttttcgtc----tttgagcag-----------------------------------------------------
  || ||||||| |||||||||||||||||||||||||| |||||||||||||| || ||||  ||||| ||||| || || ||||| |||||||| ||||||                        |||||||||  | | |  | | |||  |   | |  | |   |  |   ||       ||  |||| |  || ||     || ||  |   | ||||  |  |      ||| ||||                                                      
GCGACTATTGGCAGTTGAGGGTTGTGCTGCTCTTGGGAAGTTGTTGGAGCCCCAAGATTGTGCAGCACATATTCTCCCAGTTATTGTAAATTTCTCTCAGgtatatcttacacacttttggtggcttaataaatgttgggagaaaagataaagttgtcaatactaattctcgtaaaaattactagagtaagatttccataagatctgctactagacaataatttcatgtgcttaagtttcagcacactaccatacatggttaatgatttcaattgcttatgttttcttaacatctcag

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgagctgctttatcttgatttttttcgtctttgagcag
  |  | ||||||||||| || |||||||| ||||| ||||||||||| || || || || || |||||||||||||| || |||||||||||||| |||||| ||   |       |  ||   | | || ||   |   ||   | ||       |||  || | |||| |||    | |     |   |    |     |||  |    
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcc-catgttggacccatacatcctgcag-caagtaatttgctttctttgtctgg-aaatat-tat----tccccagaccccacccgtgggagcttcca----

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G10790.2 (Glycine max), 5'ss of exon 4
-------------TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgagctgctttatcttgatttttttcgtctttgagcag
             |||||| |||||||| |||||||||||||||||||||||| || ||||||| || || ||  |  |||| || || || || |||||||| |||||||||||        || |   ||  |   ||| || || ||  | | | | |    ||   |          ||||  | |     ||  |                         
ATCAAGACTCTGTTAGATTGTTGGCTGTGGAGGGTTGTGCTGCTCTTGGGAAACTGCTGGAGCCACAAGATTGCATCACACATATACTACCGgttattgtcaacttctcgcaggt--------gtatttttagcagtgaaatatactgttagttatcatcaaattaatttttctgcttcattatgcttaaaactattgct-------------------------

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G10790.1 (Glycine max), 5'ss of exon 4
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgag----ctgctttatcttgatttttttcgtctttgagcag
|||||| |||||||| |||||||||||||||||||||||| || ||||||| || || ||  |  |||| || || || || |||||||| |||||||||||        || |   ||  |   ||| || || ||  | | | | |    ||   |          ||||  | |      |||||||||| |   | ||  || |        
TAGATTGTTGGCTGTGGAGGGTTGTGCTGCTCTTGGGAAACTGCTGGAGCCACAAGATTGCATCACACATATACTACCGGTTATTGTCAACTTCTCGCAGgt--------gtatttttagcagtgaaatatactgttagttatcatcaaattaatttttctgcttcattatgcttaaaactattgctttatctagtaatgttcagttt--------

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 4
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgagctgctttatcttgatttttttcgtctttgagcag
 ||||| |||||||| ||||| |||||||||||||| ||  |||||||||| || || ||||||||||| || || || || ||||| || ||||| |||||| || |   |  |||   |||| | | ||  |||  |    |       || |  |   ||      || | ||   |     | |   ||  |       |        
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatga---taggaactggatatatatata-tatatacacacacacacagatatatactagcttctgatatttggaataggaaaacagaatgataaaacagt--------

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 4
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaat------aaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgagctgctttatcttgatttttttcgtctttgagcag
 ||||| |||||||| ||||| |||||||||||||| ||  |||||||||| || || ||||||||||| || || || || ||||| || ||||| |||||| ||      || ||| |  ||||    | | |  | |||  ||     | ||| || |     |||      || | ||   |     | |   |   |                
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatgataggaactgtatatatatatatatatatatatatatatatatataatgagaga----caagcttctgatatttggaataggaaaacagaacgataa--------------

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|116468454|gb|EG511046.1|EG511046
EST:     CCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAG                         -ATAAGTCCTGGCGTGTGC
genomic: CCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaat ... ctttgagcagGATAAGTCCTGGCGTGTGC
EST: gi|116468455|gb|EG511047.1|EG511047
EST:     CCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAG                         GATAAGTCCTGGCGTGTGC
genomic: CCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaat ... ctttgagcagGATAAGTCCTGGCGTGTGC