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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAGgtagtaatcttatgcactcagtagtctccttactacactccacaatcataatctgtttcgcaaatggttctgattcttctttatatcaatcgtgtgtag

Basic information

species Arabidopsis thaliana
transcript AT3G53970.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G53970.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA09G06650.1 (Glycine max), 5'ss of exon 8
GGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAGgtagtaatcttatgcactca-gtagtctccttac-tacactccacaatcataatctgtttcgcaaatggttctgattcttctttatatcaatcgtgtgtag--
|||| | ||   ||| |||||||| |||||||| ||||| || ||||||||||| |||||||| ||   | | ||  ||||||| |  |   | |   ||| ||| ||     |  || | | ||| |      ||  || |     |    ||    | ||||| |||  || || |||    
GGGTGTTCC---TCCCGGTGCGCGATTTGATCCATATGGACCTCCCGGTGTTCCTGGTTTTGAACCCAACAGATTTGCAAGgta-tggtgcaaggtcatcatgtattccatacaagtatattgcactaatgatgtcatttacatgtttaacccttgaacgtcttt-tatgtattgt-tgttctc

upper sequence: AT3G53970.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv08s0007g01340.t01 (Vitis vinifera), 5'ss of exon 8
GGGTATGCCACCTCCTGGTGCGCGTTTTGATCCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAGgtagtaatcttatgcactcagtagtctccttactacactccacaatcataatctgtttcgcaaatggttctgattctt--ctttatatcaatcgtgtgtag-
 ||| | ||||||   ||||| || |||||||||||||| ||||| || ||||| |||||||||||     | || || ||||| |  | | |   | |   |    |   |  | |  |      || |  |  | || || ||||  |    |   |  ||  ||  | || |    ||  
AGGTGTTCCACCT---GGTGCTCGATTTGATCCTTATGGCCCACCTGGCGTTCCTGGTTTTGAGCCTAATAGATTTACCAGgtatt--tttaaacaaattgattccttttcttttcctttgttttttcctttttgggtttgctaatgactgaactaaataactcaattgctatggaaaataat
















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|125291603|gb|EL305688.1|EL305688
EST:     CTTATGGTCCACCCGGTGTTTCCAGGTTTTGAGCCAGGCCGGTTCACAAG                         ACAACCTCCAAGAGGGCCAGGAGGTGGGCATCCAGACCTCGAGCATTTTCC
genomic: CTTATGGTCCACCCGGTG-TTCCAGGTTTTGAGCCAGGCCGGTTCACAAGgtagtaatct ... tcgtgtgtagACAACCTCCAAGAGGGCCAGGAGGTGGGCATCCAGACCTCGAGCATTTTCC
EST: gi|47829346|gb|CK119030.1|CK119030
EST:     CCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAG                         ACAACCTCCAAGAGGGCCAGGAGGTGGGCATCCAGACCTCGAGCATTTTCC
genomic: CCTTATGGTCCACCCGGTGTTCCAGGTTTTGAGCCAGGCCGGTTCACAAGgtagtaatct ... tcgtgtgtagACAACCTCCAAGAGGGCCAGGAGGTGGGCATCCAGACCTCGAGCATTTTCC