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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGATCGCCGGGTTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAGgtaacaattccctcacctttccttttgttcctaacgctatgaattcttcctcggactgtaattgttttcccccgttatgattgcag

Basic information

species Arabidopsis thaliana
transcript AT3G25040.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G35390.1 (Glycine max), 5'ss of exon 5
CATGGATCGCCGGGTTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAGgtaacaattccctcacctttcc-ttttgttcctaac-gctatgaattcttcctcggactgtaatt---gttttcccccgttatgat-tgcag-
 ||||||  ||||  ||||||||||||| |||||||| || ||||||||||| ||||||| |||||||  |||  |  || ||||  ||   ||  ||   | ||| | | |||  ||   ||| | ||   |  ||      || ||   ||||| 
-ATGGATTTCCGGCCTTGTTCAAACACTACTCTATGCTGATTTCTTCTATTACTATTTCCAAAGGtaa--attgacctacttttcagttccatttatatttgttatcagtccttgttcat-ctgaattttgagcatttaaaaattgtgccgtgcagc

upper sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G46570.1 (Glycine max), 5'ss of exon 5
CATGGATCGCCGGGTTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAGgtaacaattccctcacctttc----------cttttgttc-ctaacgctatgaattcttcctcggactgtaatt---gttttcccccgttatgat-tgcag
|||||||  | ||  ||||||||||||| |||||||| || ||||||||||| ||||||| |||||||   ||  |  || ||||          ||||  ||   | | | | ||| | |||  ||   |||   ||   |  ||      || ||   |||||
CATGGATTTCTGGCCTTGTTCAAACACTACTCTATGCTGATTTCTTCTATTACTATTTCCAAAGgtaat--ttggcctacttttcagttccataactttcatttatttatgttgtgagtccttgttcat-ctgagttttgagcatttaaaaattgtgccgtgcag

upper sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv05s0029g00180.t01 (Vitis vinifera), 5'ss of exon 6
CATGGATCGCCGGGTTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAGgtaacaattccctcacctttccttttgttcctaacgctatgaattcttcctcggactgtaattgttttc-ccccgttatgattgcag----
| |||||  | ||| ||||||||||| |||| ||||| || |||||||||||||||||||  ||||||| ||  | |  |  |   |||   ||  | | | ||| || ||  ||     ||| |||| | || | || || | || |       
CTTGGATATCAGGGCTTGTTCAAACATTGCTTTATGCTGATTTCTTCTATTATTATTTCCATAGgtaaccataacttttcaatctttttcaatca-atctcaatgtatgctggctgattttgttattggtctcactccattttaatggtttccag

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|124877809|gb|EH957246.1|EH957246
EST:     TTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAG                         CTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTAATTTCTAAAGTTTCA
genomic: TTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAGgtaacaattc ... atgattgcagCTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTAATTTCTAAAGTTTCA