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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAGTAGCTTTACATATTGCTCAAGCTTTAGAATATTGTACTGGCAAAGGACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGATgtaagttaagcttatttttattttattttgggcaagataagttaagcttatatgtttgattatttttaacgtttgtcaatgttaatgtgtgaatatagaaacatcatcatatgttttgtgtttttag

Basic information

species Arabidopsis thaliana
transcript AT1G63500.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G63500.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os04g58750.2 (Oryza sativa), 5'ss of exon 5
AAGAGTAGCTTTACATATTGCTCAAGCTTTAGAATATTGTACTGGCAAAGGACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGATgtaagttaagcttatttttattttattttgggcaagataagttaagcttatatgtttgattatttttaacgtttgtcaatgttaatgtgtgaatatagaaacatcatcatatgttttgtgtttttag
|||||| | | |  || | ||| | |||||||||||||| ||  |||| || ||||| || ||||||||  | ||||| || |||||||||||||||||||| |||     | || |  ||| | |||    |  ||| |  |     | | | ||  |  |||| ||   | | |  |||  |  |                                        
AAGAGTTGTTCTCTATCTGGCTGAGGCTTTAGAATATTGCACCAGCAAGGGGCGTGCTCTGTACCATGATCTTAATGCCTACAGAGTTCTCTTTGATGATgtgagta----tcatatagattgtttttgtaacgtgatcatctg----tgtgttttgtaacatttctatgttgtttacatggcacag----------------------------------------

upper sequence: AT1G63500.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 5
AAGAGTAGCTTTACATATTGCTCAAGCTTTAGAATATTGTACTGGCAAAGGACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGATgtaagttaagcttatttttattttattttgggcaagataagttaagcttatatgtttgattatttttaacgtttgtcaatgttaatgtgtgaatatagaaacatcatcatatgttttgtgtttttag
||| || | | |   | | ||| | |||||||||||||| |||  ||  || ||||| |||||||||||  | ||||| ||||||| ||| ||||||||||| |||   |  |  |||  ||||    |   || ||| ||   ||    |    |     | || |   || | |  ||  ||  |                                        
AAGGGTTGTTCTCTGTCTCGCTGAGGCTTTAGAATATTGCACTAACAGGGGCCGTGCTCTCTACCATGATCTCAATGCCTATAGAGCTCTGTTTGATGATgtgagtatcgtgtgatttgttttt----tcaacatgatcagc--agtgggttctgtaacacagttatgctgtctat--atactacag----------------------------------------

upper sequence: AT1G63500.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G01730.2 (Glycine max), 5'ss of exon 5
AAGAGTAGCTTTACATATTGCTCAAGCTTTAGAATATTGTACTGGCAAAGGACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGATgtaagttaagcttatttttattttattttgggcaagataagttaagcttata----tgtttgattatttttaac-gtttgtcaatgttaatgtgtgaatatagaaacatcatcatatgttttgtgtttttag
 ||||| ||| |     |||| |||||| |||| || |||||  ||||||||||||| || || |||||  | |||||||| |||||||| | |||||||||||||| |  || ||  | | | |  |  | |   || | | ||| |||      |||| ||| ||  | | | |  ||| |||  |  | | |   |||                               
GAGAGTTGCTCTGTGCCTTGCCCAAGCTCTAGAGTACTGTACCAGCAAAGGACGTGCTCTATATCATGATCTGAATGCTTACAGAGTTCTTTATGATGATgtaagtttattttcttcatctgtgacat--gaccttattattcaaggttaaggaattgttggatgatgctcatctgcatgttaattgtcttttattcttatg------------------------------

upper sequence: AT1G63500.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G37870.1 (Glycine max), 5'ss of exon 6
AAGAGTAGCTTTACATATTGCTCAAGCTTTAGAATATTGTACTGGCAAAGGACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGATgtaagttaagcttatttttattttattttgggcaagataagttaagcttatatgtttgattattttta-acgtttgtcaatgttaatgtgtgaatatagaaacatcatcatatgttttgtgtttttag
 || || ||| |     |||| |||||| |||| || |||||  |||||||||||||||| || |||||  | ||||| || |||||||| | ||||||||||||||     ||||||   || || |  | || ||    |    || | | |||    |||| ||  | | |  |||     ||  ||   ||||   ||     |  ||                
GAGGGTTGCTCTGTGCCTTGCCCAAGCTCTAGAGTACTGTACCAGCAAAGGACGTGCACTATATCATGATCTGAATGCCTACAGAGTTCTTTATGATGATgtaagtt-----tattttc--ttcatctgtgacatgacctttattactca-aggttaaggtattgttggatggtgctcag----aacatgcagatatgttaattgtctttta----------------

upper sequence: AT1G63500.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 5'ss of exon 6
AAGAGTAGCTTTACATATTGCTCAAGCTTTAGAATATTGTACTGGCAAAGGACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGATgtaagttaagcttatttttattttattttgggcaagataagttaagcttatatgtttgattatttttaacgtttgtcaatgttaatgtgtgaatatagaaacatcatcatatgttttgtgtttttag
||| || |||||| || |||| |||||||| |||||||||||  |||||||||||||||| || |||||  | |||||||||||| || | |||||||||||||||  |  ||  |||| ||  |||||    | | ||  ||    || | | || || | |||   || ||  ||    | ||| |  |                                    
AAGGGTGGCTTTATATCTTGCACAAGCTTTGGAATATTGTACCAGCAAAGGACGTGCACTTTATCATGATCTTAATGCTTATAGAATTGTTTTTGATGATgtaagt--atgttgctttttttcaatttt----atggtattttttttttctcttttagaatctttgatacattgctcttattaaatctcag------------------------------------

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|125324789|gb|EL338869.1|EL338869
EST:     GACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGAT                         GACTCAAATCCAAGACTTTCATGCTTCG
genomic: GACGTGCACTCTACCATGACTTAAATGCTTATAGAGTTCTCTTTGATGATgtaagttaag ... gtgtttttagGACTCAAATCCAAGACTTTCATGCTTCG