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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCACTTGGTGCAGCTAAAGGTCTCGCCTTTCTTCACGAAGAAGCTGAGAAGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctgaaagccacttaacccgataacctcaactctgtcctttctctctatgtttataaattttagaaaaaaatgctcccattgcag

Basic information

species Arabidopsis thaliana
transcript AT3G28690.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 5'ss of exon 4
TGCACTTGGTGCAGCTAAAGGTCTCGCCTTTCTTCACGAAGAAGCTGAGAAGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctgaaagccacttaacccgataacctcaactctgtcctttc---tctctatgtttataaattttagaaaaaaatgctcccattgcag
 ||||||||||| ||||| || || || |||||||| ||||||||||| | |||||| || ||||| ||||||||||| || |||||| |  | || | ||||||     | |      || |  |  |  | |    ||| | ||    |    |  ||   | ||||   ||| |     |  ||      
AGCACTTGGTGCTGCTAAGGGCCTTGCTTTTCTTCATGAAGAAGCTGAAAGGCCAGTTATCTATCGGGATTTCAAAACTTCAAATATTCTTTTAGACGCGgtatgcaaccatgtttgagaatcaaaacatattagaaatgttcatttagattgtaacattctcatatttcttaaatattcattttcag-----

upper sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G150806_T01 (Zea mays), 5'ss of exon 4
TGCACTTGGTGCAGCTAAAGGTCTCGCCTTTCTTCACGAAGAAGCTGAGAAGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctgaaagccacttaacccgataacctcaactctgtc-ctttctctctatgtttataaattttagaaaaaaatgctcccattgcag
|||||| || ||||| || ||||| || || ||||| |||||||| || |  |||||||| ||||| ||||| ||||||||||||||  ||||||||| ||||        ||  | | ||   ||| |       | |||| | || | |  ||  |  |  || |||    | | ||||   || |   
TGCACTGGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGTCCAGTCATTTATCGTGATTTTAAAACATCTAATATACTACTGGATGCGgta--------agttaatgaataggattatgcagtgtgtgtctcattatttacatactgttgcatcttatgttatattgcttgtatag---

upper sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G028037_T02 (Zea mays), 5'ss of exon 4
TGCACTTGGTGCAGCTAAAGGTCTCGCCTTTCTTCACGAAGAAGCTGAGAAGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctgaaagccacttaacccgataacctcaactctgtcctttctctctatgtttataaattttagaaaaaaatgctcccattgcag
||| |||||||| || ||||| ||||| |||||||| ||||||||||| |  ||||| || ||||| || |||||||| || |||||| |  | |||| ||||        ||| |||  |    |  |  | ||   | | | |||     ||    ||  ||||   || | | |  |  ||      
TGCTCTTGGTGCTGCGAAAGGCCTCGCTTTTCTTCATGAAGAAGCTGAAAGACCAGTAATCTATCGGGACTTCAAAACCTCCAATATTCTTTTAGATGCGgta--------agcaactatattgaa--atgttaaaaatattcattc-----atacaaatgtatttgctaacatatttttttcag-----

upper sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G132184_T03 (Zea mays), 5'ss of exon 4
TGCACTTGGTGCAGCTAAAGGTCTCGCCTTTCTTCACGAAGAAGCTGAGAAGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctgaaagccacttaacccgataacctcaactctg-tcctttctctctatgtttataaattttagaaaaaaatgctcccattgcag
|||||| || ||||| || ||||| || || ||||| |||||||| || |  |||||||| ||||| ||||| ||||||||||||||  | ||||||| ||||        ||  | | ||   ||| |       | || | | |  ||| |||  |  || ||  ||    | | ||||   |  |   
TGCACTCGGAGCAGCAAAGGGTCTGGCTTTCCTTCATGAAGAAGCAGAAAGACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCGgta--------agttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacag---

upper sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G02360.1 (Glycine max), 5'ss of exon 3
TGCACTTGGTGCAGCTAAAGGTCTCGCCTTTCTTCACGAAGAAGCTGAGAAGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctgaaagccacttaacccgataacctcaactctgtcctttctctctatgtttataaattttagaaaaaaatgctcccattgcag
||||||||||||||| |||||||| || ||||| || ||||| ||| ||| |||  | |||||||| ||||||||||||||||||||  || | |||| |||||||  |  |     ||||       |  ||   |   ||||    |   |     | ||  |  | ||| ||||| |   |      
TGCACTTGGTGCAGCCAAAGGTCTTGCTTTTCTCCATGAAGAGGCTCAGAGGCCCATAATATATCGTGATTTCAAAACATCTAATATACTATTAGATGCGgtatgtaggtgaaggtattaatt-----atttcttattcatcctccaaccaaaaagcaaaaatctaaaaaaacaaatgtttatag-----

upper sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G37580.1 (Glycine max), 5'ss of exon 4
TGCACTTGGTGCAGCTAAAGGTCTCGCCTTTCTTCACGAAGAAGCTGAGAAGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctgaaagccacttaacccgataacctcaactctgtcctttctctctatgtttataaattttagaaaaaaatgctcccattgcag
|||||||||||| || ||||||||  | ||||| || ||||||||| ||| ||| || || ||||| ||||| || |||||||||||| |  | |||| |||||||  |  | |||   ||    |     | || | | |  | ||  ||       |||||    | ||||| ||  |    ||  ||
TGCACTTGGTGCTGCAAAAGGTCTTACTTTTCTCCATGAAGAAGCTCAGAGGCCTGTAATCTATCGTGATTTTAAGACATCTAATATTCTGTTAGATGCGgtatgtgagttaaccaggaaa---aaggtttttaattattttttatccatcctccaacataaaaac-ataaaaacataattgtttt-tag

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|124816770|gb|EH901636.1|EH901636
EST:     CGAGATTTCAAAACATCTAATATTTTACTGGATGGG                         GAATATAATGCAAAGCTCTCTGATTTTGGGCTTGCAAAAGATGCTCCAGAC
genomic: CGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctga ... cccattgcagGAATATAATGCAAAGCTCTCTGATTTTGGGCTTGCAAAAGATGCTCCAGAC
EST: gi|125211978|gb|EL226932.1|EL226932
EST:     TCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGG                         GAATATAATGCAAAGCTCTCTGATTTTGGGCTTGCAAAAGATGCTCCAGAC
genomic: TCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctga ... cccattgcagGAATATAATGCAAAGCTCTCTGATTTTGGGCTTGCAAAAGATGCTCCAGAC
EST: gi|164098538|gb|ES117963.1|ES117963
EST:     AGCCAGTCATATATCGAGATTTTAAAACATCTAATATTTTACTGGATGGG                         GAATATAATGCAAAGC
genomic: AGCCAGTCATATATCGAGATTTCAAAACATCTAATATTTTACTGGATGGGgtatgtctga ... cccattgcagGAATATAATGCAAAGC