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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTCTGAATGAGATATACGTGGAAGAAGAAGACTACGATAGGTTGCGAGAGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttcaaatatactacccctttaatattttctctctttaaaaatggaaaaagaatggccttagagatgatataatcttcctgtgaatggtgcgaacag

Basic information

species Arabidopsis thaliana
transcript AT3G08530.1
intron # 26
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 26
lower sequence: GRMZM2G062042_T02 (Zea mays), 5'ss of exon 11
GGCTCTGAATGAGATATACGTGGAAGAAGAAGACTACGATAGGTTGCGAGAGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttcaaatatactacccctttaatattttctctctttaaaaatggaaaaagaatggccttagagatgatataatcttcctgtgaatggtgcgaacag
 ||  |||||||  | || || ||||| || |||||||| ||  | || || ||  ||||  | ||||||| ||||||||||||||| || || ||||||||||| |  ||||| | || ||    | |  |     || |          |     |  || ||  |  | |||  || |     |  || | ||      
AGCCTTGAATGAACTTTATGTCGAAGATGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtgcaattcct----------atcgctaccgcttttaatttaataacatgtgttaatttattgagcag----

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 26
lower sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
GGCTCTGAATGAGATATACGTGGAAGAAGAAGACTACGATAGGTTGCGAGAGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttcaaatatactacccctttaatattttctctctttaaaaatggaaaaagaatggccttagagatgatataatcttcctgtgaatggtgcgaacag
 ||  |||||||| | || || ||||| || |||||||| ||  | || || ||  ||||  | ||||||| ||||||||||||||| || || ||||||||||| |  ||||| | || ||    | |  |     || |                |  || ||  |  | |||  || |     |  || | ||      
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtgcaattcct----------gtcgctaccgcttttaatttaatagcatgtgttaatttattgagcag----

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 26
lower sequence: GRMZM2G395549_T01 (Zea mays), 5'ss of exon 11
GGCTCTGAATGAGATATACGTGGAAGAAGAAGACTACGATAGGTTGCGAGAGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttcaaatatactacccctttaatattttctctctttaaaaatggaaaaagaatggccttagagatgatataatcttcctgtgaatggtgcgaacag
                            || ||||| || ||  | || || ||  ||||    ||||||| ||||||||||||||| || || ||||||||||| |  ||||| | || ||    | |  |     || |          |     |  || ||  |  | |||  || |     |  || | ||      
----------------------------GAGGACTATGAGAGACTCCGTGAATCAGTTGACACGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtgcaattcct----------atcgctaccgcttttaatttaataacatgtgttaatttattgagcag----

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 26
lower sequence: GLYMA14G06340.1 (Glycine max), 5'ss of exon 26
GGCTCTGAATGAGATATACGTGGAAGAAGAAGACTACGATAGGTTGCGAGAGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttcaaatatactacccctttaa--tattttctctctttaaaaatggaaaaagaatggccttagagatgatataatcttcctgtgaatggtgcgaacag
 ||  ||||||||||||| || || || ||||| || ||||| ||||| ||||| |||||||| || || | |||||| || || ||||| ||||| |||||   |   |||| | ||     ||  |  |||||| |   || |    ||||||          |   |||| || |  | || ||||  | |  |       
AGCGTTGAATGAGATATATGTCGAGGAGGAAGATTATGATAGATTGCGCGAGTCAATTGATTTGCACGATAACTTTGATCAAATAGGCCTTGCTCAAAAGgtgtgg---aaatttgctcttaattggaactattttttggtttcagctgtggaaa----------tctcagattat-tgttattactgtatacgcag-------

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|125064612|gb|EL132175.1|EL132175
EST:     ACCAGATTGGCCTCGCTCAGAAG                         ATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC
genomic: ACCAGATTGGCCTCGCTCAGAAGgtaaagttca ... gtgcgaacagATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC
EST: gi|47829444|gb|CK119128.1|CK119128
EST:     AGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAG                         ATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC
genomic: AGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttca ... gtgcgaacagATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC
EST: gi|116468291|gb|EG510883.1|EG510883
EST:     AGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAG                         ATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC
genomic: AGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttca ... gtgcgaacagATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC
EST: gi|47828467|gb|CK118151.1|CK118151
EST:     AGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAG                         ATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC
genomic: AGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttca ... gtgcgaacagATCGAGAAACACGAACTTGTTGAAATGAGACGTGTGGCTGCTTATATCTAC