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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattttatcattacttacgaaaattcttgttactctcacaatggtgactttgtagtttgttaatacacaagttttcaattgtag

Basic information

species Arabidopsis thaliana
transcript AT3G08530.1
intron # 23
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 23
GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtatt----ttatcattacttacgaaa------attcttgttactctcacaatggtgact----ttgtagtttgttaatacacaagt---tttcaattgtag-
| ||||||||||| || ||||| || |||||| | ||||| ||||| || ||||| || |||||||| || ||||||||  |||| ||| | ||||| ||||||     || |  ||| |    | |      | | || || ||     |    | | |     | | | ||| | | | | || |   ||| |||||    
GGGATCCTACCCTTGCTGTTGTTGCTTACAGACGTGGACAGTGTGATGATGAACTTATTAATGTCACCAATAAAAACTCACTGTTCAAGCTGCAAGCTAGgtatgcaaattgtttttattcttcataccttttaattttatttcttctgaatctttaaatccatctattgattgcttacatagaaatcgatttgaattgccag

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 23
GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtatt----ttatcattact-----tacgaaaattcttgttactctcacaatggtgactttgtagtttgttaatacaca-agttttcaattgtag-------
| ||||||||||| || ||||| || |||||| | ||||| ||||| || ||||| || |||||||| || ||||||||  |||| ||| | ||||| ||||||     || |  ||| |     |||    | | || || ||     |    | | |   | | ||| |     ||| ||   || |||  |        
GGGATCCTACCCTTGCTGTTGTTGCTTACAGACGTGGACAGTGTGATGATGAACTTATTAATGTCACCAATAAAAACTCACTGTTCAAGCTGCAAGCTAGgtatgcaaattgtttttattcttcatacttttaattttatttcttctgaatctttaaatccatcgattgattgcttacatagaaatcgatttgaattgccag

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 21
GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattttatcattact--------tac-gaaaattcttgttactctca----------caatggtgactttgtagtttgttaat---acacaagttttcaattgtag
| |||||||| || || ||||| || || ||| | || ||||||||||| || || || |||||||||||||||||||| ||||| ||| ||||||| |||||| | || |||  |        ||| ||    | |||||  |  ||           | ||   | |   | | ||| | ||   ||| || |||  ||||  ||
GAGATCCTACACTTGCTGTTGTTGCTTATAGACGTGGGCAATGTGACGACGAGCTTATTAATGTCACTAACAAAAACTCATTGTTCAAGCTACAAGCTAGgtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcag

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 23
GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattt----tatcattacttacgaaaattcttgttactctcacaatggtgactttgtagttt--gttaatacacaagttttcaattgtag----------
||||||| ||| |||||||||| || ||  |  |||||||||||||||| ||||| ||||||||||| |||||||| |||||||| ||  | ||||| |||| | |    |||  |  ||     ||| |     ||  ||    | | | |  | ||||||      | |    |   ||   |||||            
GTGATCCCACCTTAGCAGTTGTAGCTTATCGGCGAGGACAATGTGACGATGAACTTATCAATGTCACCAACAAAAATTCTTTGTTCAAACTGCAAGCAAGgtttgtggtgtatattggctcctctaaagtgagagtatactttgcaggataaagt-gtagttacaaccattgattattgttattattgttacaacttcgaa

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA14G06340.1 (Glycine max), 5'ss of exon 23
GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattt----tatcattacttacgaaaattcttgt--tactctcacaatggtgactttgtagtt-----tgttaatacacaagttttcaattgtag----
| ||||| ||| |||||||||| || ||  |  |||||||||||||||| ||||| ||||||||||| |||||||| |||||||| ||  | ||||| |||| | |    |||  |  |||    ||| |       ||  ||    | | | |   |||||||       || ||    ||     |||||  |     
GGGATCCCACCTTAGCAGTTGTAGCTTATCGGCGAGGACAATGTGACGATGAACTTATCAATGTCACCAACAAAAATTCTTTGTTCAAACTGCAAGCAAGgtttgtggtgtatattggcttctctaaagtgagagagtatactttgcaggataaaagtgtagttgcaaccattgattagaaaaccaacaattaaaattgt

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 22
GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattttatcattacttacgaaaattcttgttactctcacaatggtgactttgtagtt---tgttaatacacaagt-tttcaattgtag
||||||| ||| | |||||||| || || ||  | |||||||||||||| ||||| |||||||| || |||||||| |||||||| ||  ||||||| |||| | |  |   || |||     ||| || || |||| |  ||| | |   |    ||   || | | |  |   | ||   |||  ||
GTGATCCCACCTTGGCAGTTGTAGCTTATAGGCGGGGACAATGTGACGACGAACTTATCAATGTGACAAACAAAAATTCTTTGTTCAAACTACAAGCAAGgtttgtggtgtatatttat----atttttttttctctaa--atgattatccttggattcaatgcttacatgctcatattgggattacag

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 23
GTGATCCTACCCTAGCAGTTGTGGCATACAGAAGAGGACAATGTGACGAGGAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattttatca--ttacttacgaaaattcttgttactctcacaatggtgactttgtagtttgttaatac--acaagt-tttcaattgtag
||||||| ||||| |||||||| || ||| | ||||||||||||||||| ||||| || |||||||| || || ||||||||||| ||  | |||||||||| | | |     |||||| |  | ||  || | |    ||      | | || |||  | |    |||  |||  |  ||| |||  ||
GTGATCCCACCCTCGCAGTTGTTGCTTACCGGAGAGGACAATGTGACGAAGAACTTATAAATGTCACAAATAAGAACTCTTTGTTCAAACTGCAAGCCAGgtttgtgacttgtttacttcccgatata-ttatcatatgcatgg-attcatttggtacatggacgctacttacacatacttccatttcag

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|116430174|gb|EG472766.1|EG472766
EST:     GAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAG                         GTATGTAGTGGAGAGGATGGATGGTGATCTGTGGGATAAGGTTCTCGATGA
genomic: GAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattttatc ... tcaattgtagGTATGTAGTGGAGAGGATGGATGGTGATCTGTGGGATAAGGTTCTCGATGA
EST: gi|116430171|gb|EG472763.1|EG472763
EST:     GAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAG                         GTATGTAGTGGAGAGGATGGATGGTGATCTGTGGGATAAGGTTCTCGATGA
genomic: GAACTCATCAATGTCACTAACAAAAACTCTTTGTTTAAGTTACAAGCCAGgtattttatc ... tcaattgtagGTATGTAGTGGAGAGGATGGATGGTGATCTGTGGGATAAGGTTCTCGATGA