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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttctctcattttccacattgaacttcttcgaattcaaagtgctggttatgaaaaatccgatgataactgtacag

Basic information

species Arabidopsis thaliana
transcript AT3G27240.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 5'ss of exon 6
GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttctctcattttc-----cacattgaacttcttcgaattcaaagtgctggttatg------aaaaatccgatgataactgtacag---------
||| | |||||||| |  |||||||| ||||| ||||| ||||||||||||||||| ||||| ||  |   ||||| | ||  ||  | ||      || ||   | | | |   | | |  ||||   | |         || |||  |   |||  || ||         
GCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAGgtaaatctcattctctgtcagttataccttaggcatttgcagttgctacttgctatgtgtatcgcccttaattcctttacaaacaataaagatgctcttg

upper sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
----------------------------GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttctctcattttccacattgaact--------tcttcgaattc---aaagtgctggttatgaaaaatccgatgataactgtacag---------
                            ||| | ||||||||||  |||||||| || || ||||| ||||| ||||||||||| ||||||||  |   ||||  || ||    | ||     ||| | |        | ||  | |||    | ||  | | | |   |     | | |||| ||   ||         
GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc

upper sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 5
GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttctctcattttccacattgaact--------tcttcgaattc---aaagtgctggttatgaaaaatccgatgataactgtacag---------
||| | ||||||||||  |||||||| || || ||||| ||||| ||||||||||| ||||||||  |   ||||  || ||    | ||     ||| | |        | ||  | |||    | ||  | | | |   |     | | |||| ||   ||         
GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc

upper sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G06700.2 (Glycine max), 5'ss of exon 5
GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtt----tctctcattttccacattgaacttcttcgaattcaa-agtgctg---gttatgaaaaat---ccgatgataactgtacag---------
|| |||||||||||||  |||||||| ||||| |||||||||||||| ||||| || ||||||||  | ||||||| ||    | ||| || ||     ||  ||||  |  | |  |  | |  |     || ||   | |   | ||||  || ||    |         
GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCGgtaaattcttctttcttatcttaagtcttctactttatttagtaaagtaattttatacattttgctcagttgactgatggaaaatgctaggccaccaata

upper sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 5
GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttctctcattttccacattgaacttcttcgaattcaaagtgctggttatgaaaaatccgatgataactgtacag----------------------
|| |||||||||||||  |||||||| ||||| ||||| |||||||| ||||| || ||||||||  | ||||||| ||  | ||  ||  ||  || || |  |  |   | |  |   |   | |   | || | |  | |  |||                          
GCTCGTCACAATGGTCAGAACTATGTGTTTGCACTTCTAACTGGTTATCGTGACCCTCCTGCTGGTGTTTCGgtaaattgttgtctattaacatttttaattattatg--cttattgctgtaacttttgcacattctaccaaagttgtcttatatgtcaattgctagactacgt

upper sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G24620.2 (Glycine max), 5'ss of exon 5
GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtt-tctctcattttccacattgaacttcttcgaattcaaagtgctggttatgaaaaatccgatgataactg-tacag---------------------
|| |||||||||||||  |||||||| ||||| ||||| |||||||| ||||| || ||||||||  | || ||||||| | | | || |      ||  | ||  |  | |  |||||  |  |||| ||   | | | | | |||| |  |                      
GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCAgtaagttcttttttatctaaagtcttctattttatttagt--aaagtaatt-ttataaatttttctaagttgactgatggaaaatgttaggccaccaatacct

upper sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 5
GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttctct-cattttccacattgaacttcttcg--aattcaaagtgctggttatgaaaaatccgatgataactgtacag-----------------
|| || |||||||||| ||||||||| ||||| || || ||||||||||||||||| ||||||||||| ||||||| ||  ||| || |    | |||    ||| | |  ||||    |     |   | | || |    |   |||| ||                    
GCTCGCCACAATGGTCAAAACTATGTATTTGCACTGCTAACTGGTTACCGTGATCCACCTGCTGGCATTTCGgtaaattcttcttcactgatgatattagttttcatggttaattttgtgacacagacttcataattttcttataaactttaacatcacgactttgtatttt

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|86081060|gb|DR376817.1|DR376817
EST:     CTGACTGGTTACCGTGATCCCCCTGCT-GCATAYCG                         ATTAGAGA-GGGTTACACTACAATCCTTATTTCCCTGGGGGAGCAATTGCT
genomic: CTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttct ... aactgtacagATTAGAGAGGGGTTACACTACAATCCTTATTTCCCTGGGGGAGCAATTGCT
EST: gi|125159487|gb|EL187550.1|EL187550
EST:     ATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCG                         ATTAGAGAGGGGTTACACTACAATCCTTATTTCCCTGGGGGAG
genomic: ATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttct ... aactgtacagATTAGAGAGGGGTTACACTACAATCCTTATTTCCCTGGGGGAG