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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATGgtatgttttcctttgtcactttttctcttatggcctaatcttccatgtccttgttttgacgtggcatctatgctgtccaatattag

Basic information

species Arabidopsis thaliana
transcript AT1G55520.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G04500.1 (Glycine max), 5'ss of exon 4
CGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATGgtatgttttcctttgtcactttt-------tctcttatggcctaatcttccatgtccttgtttt-gacg-tggcatctatgctgtccaatattag-----
||||| |||||||| || |||||||| ||||| || || || || ||  |||||||||||||||| || |||||||| |    |    ||||  |       ||| |||     || |  | ||| |  || ||||  | | || | || |    || | || |||      
CGTTTTGCTGCTGTGATTATGAGGATAAGAGATCCCAAAACAACTGCTCTAATTTTTGCTTCTGGCAAGATGgtatgatcctttgctgcactgctatgtctatcttttagatgatagtagtgcattttgttatttttaatgctgtcctcaaattagttctatgttaatttat

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G06370.1 (Glycine max), 5'ss of exon 1
----------------------------CGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATGgtatgttttcctttgtcactttt-------tctcttatggcctaatcttccatgtccttgtttt-gacgtggcatctatgctgtccaatattag------
                            ||||| |||||||| || |||||||| ||||| || || || |||||  | |||||||||||||| || |||||||| |    |    ||||  |       ||| |||     || |  | ||| |  || ||||  | |  |     |   |      | |  |      
TGGTTGGTGGTATACTGTTTGTTTGCAGCGTTTTGCTGCTGTCATTATGAGGATAAGAGATCCCAAAACAACAGCACTTATTTTTGCTTCTGGCAAGATGgtatgctcctttgctgcactgctatggctatcttttagatgatagtagtgcattttgttatttttaatgctgtcctcaaatttgtagttgtgtgattctc

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 5'ss of exon 4
CGTTTCGCTGCTGTAATCATGAGGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATGgtatgttttccttt----gtcactttttctcttatggc---------ctaatcttccatgtccttgttttgacgtggcatctat-gctgtccaatattag
||||| ||||| |||||||||||||| || || ||||| ||||| || || || ||||||||||| || |||||| ||| | |  |    |  |||   | |||||| |          |||     | || | ||  ||| ||  ||  ||  || |   |   |  |   
CGTTTTGCTGCCGTAATCATGAGGATAAGGGACCCAAAAACCACGGCTTTGATATTTGCTTCTGGAAAGATGgtaagttatgccatagcagctactgcctttcttattgaaaactgtagctaccacactatctgctgctttagatttgctatgaatcgtaatttgacgtctt

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|19874591|gb|AU235422.1|AU235422
EST:     GGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATG                         GTGTGTACCGGAGCTAAAAGTGAACATCTTTTCAAAGCTTGCTGCA-GAAA
genomic: GGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATGgtatgttttc ... ccaatattagGTGTGTACCGGAGCTAAAAGTGAACATCTTT-CAAAGCTTGCTGCAAGAAA
EST: gi|47831853|gb|CK121537.1|CK121537
EST:     GGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATG                         GTGTGTACCGGAGCTAAAAGTGAACATCTTTCAAAGCTTGCTGCAAGAAAG
genomic: GGATCAGAGAGCCAAAGACCACAGCGTTAATTTTTGCTTCTGGGAAAATGgtatgttttc ... ccaatattagGTGTGTACCGGAGCTAAAAGTGAACATCTTTCAAAGCTTGCTGCAAGAAAG