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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAACATGTGCTTACCCTGATGATGCCGCTTCTCACTGCCCAACAACTGAACGTCCAACAGTTTGCCAAATATATGCTATTTGTCAAGGATATTCTCAGgtgtgcatcttgttatcagtcagtacttttgaatagtgttttcacgtccgtaccacaacagtgttgttgtctttattgtgatttgtattcatctattgtaacag

Basic information

species Arabidopsis thaliana
transcript AT1G71410.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G71410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G059893_T01 (Zea mays), 5'ss of exon 1
CAGAACATGTGCTTACCCTGATGATGCCGCTTCTCACTGCCCAACAACTGAACGTCCAACAGTTTGCCAAATATATGCTATTTGTCAAGGATATTCTCAGgtgtgcatcttgttatcagtcagtacttttgaatagtgttttcacgtccgtaccacaacagtgttgttgtctttattgtgatttgtattcatctattgtaacag
                                       | || |||||||| || ||||| |||||||| |||||||||||||||||||| |||   |||| | |||    |||||   || | || |  |   ||   |  |  |    || | |  | |     | | | ||  |                          
---------------------------------------CACATCAACTGAATGTACAACAATTTGCCAAGTATATGCTATTTGTCAAGGACATTACAAGgtat-cat----ttatcctgcattgctctctacgtgtccatcaatatgtcaactaaactactacg--tatttctacag--------------------------

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G061681_T02 (Zea mays), 5'ss of exon 13
CAGAACATGTGCTTACCCTGATGATGCCGCTTCTCACTGCCCAACAACTGAACGTCCAACAGTTTGCCAAATATATGCTATTTGTCAAGGATATTCTCAGgtgtgcatcttgttatcagtcagtacttttgaatagtgttttcacgtccgtaccacaacagtgttgttgtctttattgtgatttgtattcatctattgtaacag
| ||| ||||| || | || ||  | ||  | ||||| || || |||||||| || ||||| |||||||| |||||||||||||||||||| |||   |||| |     |  |||||   || | || |    | ||   || |  |    || | |  | |     | | | ||  |                          
CGGAATATGTGATTCCTCTCATCTTCCCATTACTCACAGCACATCAACTGAATGTACAACAATTTGCCAAGTATATGCTATTTGTCAAGGACATTACAAGgtat-----tgtttatcctgcattgctctcctgt-gtccattaatatgtcaactaaactactacc--tatttctacag--------------------------

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA12G37070.1 (Glycine max), 5'ss of exon 13
CAGAACATGTGCTTACCCTGATGATGCCGCTTCTCACTGCCCAACAACTGAACGTCCAACAGTTTGCCAAATATATGCTATTTGTCAAGGATATTCTCAGgtgtgcatcttgttatcagtcagtactt--ttgaatagtgttttcacgtccgtaccacaacagtgttgttg-tctttattgtgatttgtattcatctattgtaacag-----------------
| || ||||| ||| |  || | || || || || ||||| |||||| |||| || ||||||||||||||||||||||| |||||||||||||| |||  ||     | |  || | |   |  | |           | ||||    || || |  |  || |||  ||  ||| |       ||    || || | || |   |                  
CTGAGCATGTTCTTCCATTGCTTATACCCCTGCTGACTGCTCAACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCTTTGTCAAGGATATGCTCCAgtaatattttcttttttaaaaaaaattaagcccctctattttttgttatctgt-cttcctcattgtccttaatctctgacaaacttctctttaattttttttttgaactttgtgctctgtacag

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA09G00470.1 (Glycine max), 5'ss of exon 13
CAGAACATGTGCTTACCCTGATGATGCCGCTTCTCACTGCCCAACAACTGAACGTCCAACAGTTTGCCAAATATATGCTATTTGTCAAGGATATTCTCAGgtgtgcatcttgttatcag---tcagtacttttgaatagtgttttcacgtccgtaccacaacagtgttgttg-tctttattgtgatttgtattcatctattgtaacag-----------------------
| || ||| | ||| |  || | ||||| || || ||||| | |||| |||| || ||||||||||||||||||||||| |||||||||||||| |||  ||     | || | |  |    | |   |  |    |  | | || |  | |   |     || |||  ||| ||| |       ||    ||  | | || |   |                        
CTGAGCATCTTCTTCCATTGCTTATGCCCCTGCTGACTGCTCCACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCTTTGTCAAGGATATGCTCCAgtaatttttttttaaataattcttaaccccctcattttttttatttattttctgtctttctcattgtccttgatctctgacaaacttctcttttttttttttttttaaaaaaaaaactgtgttctgtatag

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 5'ss of exon 13
CAGAACATGTGCTTACCCTGATGATGCCGCTTCTCACTGCCCAACAACTGAACGTCCAACAGTTTGCCAAATATATGCTATTTGTCAAGGATATTCTCAGgtgtgc--atcttgttatcagtcagta-----------cttttgaata-gtgttttcac-----------gtccgtaccac--aacagtgttgt--tgtctttattgtgatttgtattcatctattgtaacag
| || ||||| ||| | ||  | |  || ||||||| ||| |||||| |||| || ||||||||||| || || ||||| ||||| |||||||| ||||||| |    | ||  ||  | |||  ||           ||| |    | |||||||||            |  |  |||||  || ||  |||   ||| |   ||    ||| | ||  | | || ||||||
CTGAGCATGTCCTTCCACTACTCACACCTCTTCTCATTGCTCAACAATTGAATGTTCAACAGTTTGCAAAGTACATGCTCTTTGTTAAGGATATCCTCAGgtattataaactgattgactgtccctaaattctcctatcttctctgcatgtgttttcatctgaatgctgtgctcagaccaccgaaaagccttgaaatgtttcccttcctttttttgttgctgttttataacag

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|125248363|gb|EL262448.1|EL262448
EST:     TGCCAAATATATGCTATTTGTCAAGGATATTCTCAG                         GAAAATAGAGGAAAAAAGAGGAGTAACAGTGAACGATTCCGGAGTCCCAGA
genomic: TGCCAAATATATGCTATTTGTCAAGGATATTCTCAGgtgtgcatct ... attgtaacagGAAAATAGAGGAAAAAAGAGGAGTAACAGTGAACGATTCCGGAGTCCCAGA