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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc...

Basic information

species Arabidopsis thaliana
transcript AT3G01040.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G26480.1 (Glycine max), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc
 ||||| || || |  || || | |||||| || ||| ||||| | |||||||| |||||||||||||| |||||||||||  | |||||  |||||||||| ||    | |      |  |  ||        || | |  ||||  |  |   |    |     |   | |  ||   | | ||  || |     || 
TCTCAGTGACACCAGTCCACGTAAATTTGCATCTAAATTGCAGGCCAGAAGTCCAAAATACATATCTTTACTCAACCATCTCCGCATATACTTACCAGAGgtgaattgcattcaacaatgatcattctgttttctttgtccatctccacatatctattgttgcttgttcaagtagatcattgttaactttatattgcttt

upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G05950.1 (Glycine max), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttact-ttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc
 ||||| || || |  ||    | |||||| || ||| ||||| |||||||||| || || ||||||||||||||||||||  | || ||  |||| |||||||     | |      || |||| ||       |||  || ||||           ||| ||   | |  || ||||  | |  | || |    || | 
TCTCAGTGATACCAATCCATATAAATTTGCCTCAAAATTGCAGGCAAGAAGTCCAAAGTATATATCTTTGCTCAACCATCTCCGCATTTACATACCTGAGgtaagttggattcaacaattatactctttctgtctttcctctctctctctctctctctctacatatatatatatatatatatatatatatatatatatat-

upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G49960.1 (Glycine max), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatggctcttaatgtataggtttcaaaattttgccatttc
 ||||| || |  |  || || | |||||| || ||| ||||| | |||||||| || ||||||||||| |||||||||||  | |||||  |||||||||||||    | |      |  |  ||        || | |  ||||           || | |  ||||   | ||||  | |  | || |    || | 
TCTCAGTGACATCAGTCCACGTAAATTTGCATCTAAATTGCAGGCCAGAAGTCCAAAGTACATATCTTTACTCAACCATCTCCGCATATACTTACCAGAGgtaaattgcattcaacaatgatcattctgttttctttgtccatctctctctctctctctctctctctctctctatatatatatatatatatatatatata

upper sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 5'ss of exon 4
CCTCAGCGAAACAACCCCTCGAACATTTGCTTCGAAACTGCAGTCAAGAAGTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaaatatgtccttttactttcaaaaagttcgcctttctcgtctaaatgaactatatg-gctcttaatgtataggtttcaaaattttgccatttc----
 ||||| || || || || |||| ||||||||||||| ||||| | |||||||| || ||||| || ||||||||||||||  | |||||| ||||||||||||    |  |   |   | || ||    |    |     |     ||| ||  |||||||   ||| ||  |  |||  |   |||  ||||  |||      
TCTCAGTGAGACTACTCCACGAAGATTTGCTTCGAAATTGCAGGCTAGAAGTCCTAAGTACATTTCCTTGCTCAACCATCTCCGCATATATATACCAGAGgtaatctgatgtggtttgatatatttctcca---cttattgtgtagatctgaa--aactataaaagcttttggttaatatatacaaaatatttggtattagaggt

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|116476805|gb|EG519397.1|EG519397
EST:     GTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAG                         CTTTTTCCGAACTTAGACAAGGTAGTGTTCTTAGATGATGATATAGTGATA
genomic: GTCCCAAATACATATCTTTGCTCAACCATCTTAGAATATATCTACCAGAGgtaaaagaaa ... atttggacagCTTTTTCCGAACTTAGACAAGGTAGTGTTCTTAGATGATGATATAGTGATA