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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTCCTGTTTTTGAGCAGAGGATTGATAACATAGTTGGTATTGCATATGCTATGGATCTCCTAGATTATGTTCCAAAGgtctggctgcttcattttctgtttcttgtgtttgttttcttttcactgataaggacaccatagttgtgcacttttgtggaatgaatttatatattttcttctgttttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G55930.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55930.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA02G46780.1 (Glycine max), 5'ss of exon 8
GGTTCCTGTTTTTGAGCAGAGGATTGATAACATAGTTGGTATTGCATATGCTATGGATCTCCTAGATTATGTTCCAAAGgtctggctgcttcatt--ttctgtttcttgtgtttgttttcttttcactgataaggacaccatagttgtgcacttttgtggaatgaatttatatattttcttctgttttgcag
||| ||||||||||||||  |  ||||||| ||| | ||||| |||||||| |||||||| || |||||||||| ||||||  |     || | |  |  ||||| ||| |||     |  ||| ||| || |    |  ||| |    || | |  | |  || |    |||| | | ||   ||||| ||
GGTACCTGTTTTTGAGCAACGTGTTGATAATATAATGGGTATAGCATATGCAATGGATCTGCTGGATTATGTTCAAAAGgttggcagattttactcatcatgtttattgagttacaagtgcttt-acttatta----attata-tcccccaatctcatagtttgcagaactataatctgtttgattttgaag

upper sequence: AT1G55930.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA14G01920.1 (Glycine max), 5'ss of exon 8
GGTTCCTGTTTTTGAGCAGAGGATTGATAACATAGTTGGTATTGCATATGCTATGGATCTCCTAGATTATGTTCCAAAGgtctggctgcttcatt--ttctgtttcttgtgtttgttttcttttcactgataaggacaccatagttgtgcacttttgtggaatgaatttatatattttcttctgttttgcag
 || ||||||||||||||  |  ||||||| ||| | ||||| || ||||| |||||||| || |||||||||| ||||||  ||    || | |  |  ||||| ||| |||  |  |  |||   ||  ||  | | |         || | |  | |  || |    |||| | | ||   ||||| ||
AGTACCTGTTTTTGAGCAACGTGTTGATAATATAATGGGTATAGCTTATGCAATGGATCTGCTGGATTATGTTCAAAAGgttaggagattttactcatcatgtttattgagttactagtgctttacttgtcaattatatcccc------caatctcatagtctgcagaattataatctgtttgattttgaag

upper sequence: AT1G55930.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv19s0090g01820.t01 (Vitis vinifera), 5'ss of exon 8
GGTTCCTGTTTTTGAGCAGAGGATTGATAACATAGTTGGTATTGCATATGCTATGGATCTCCTAGATTATGTTCCAAAGgtctggctgctt--cattttctgtttcttgtgtttgttttcttttcactgataaggacacca----tagttgtgcacttt-tgtggaatgaat-ttatatattttcttctgttt-tgcag---------------------------------------------
||||||||||||||||||| |  ||||||||||||||||| |||||||||| |||||||| || |||||| |||  |||||  |   || |  |||||    ||| |  |   |      |     |  | | ||  || |    || || ||    || ||   ||| |   || | |  ||||||||  || | ||                                              
GGTTCCTGTTTTTGAGCAGCGTGTTGATAACATAGTTGGTGTTGCATATGCAATGGATCTGCTGGATTATCTTCAGAAGgttagctagcattgcatttatcttttttgataaataagcaatagaggcaaagagggtgacaaattttacttctgtttcttatgctaaattatcgttgtgttatttcttctaattatacacaactatctgatagtttgcagaattatgatctgtttgattttgaag

upper sequence: AT1G55930.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S58_81V6.1 (Physcomitrella patens), 5'ss of exon 11
GGTTCCTGTTTTTGAGCAGAGGATTGATAACATAGTTGGTATTGCATATGCTATGGATCTCCTAGATTATGT---------------TCCAAAGgtctggctgcttca---ttttctgtttcttgtgtttgttttcttttcactgataaggac----accatagttgt-gcacttttgt-------ggaatgaatt--tatatattttcttct---gttttgcag---------------------
||| || || ||||| |   | ||||| ||||||||||| |||||||||||||||||| | || ||||| ||               ||||| | |     ||  |      | |  | |||  |  |    |  ||||   |    |  |||    |   | ||| | |     ||||        |||||  ||  ||||||| ||  |||   |  || | |                     
GGTCCCAGTATTTGAACGACGCATTGACAACATAGTTGGCATTGCATATGCTATGGATATGCTTGATTACGTGGAGCAGgtaattcatccaaggattgaattgaattgagtctattcggttccggaatggactacctttgttcctgcatagacttaaattgtggtttttgttaccttgtctttgagagaatggcttgctatatatgttgctcttgagacttactgttggcatttcctttggtgtag

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|124961838|gb|EL036310.1|EL036310
EST:     ACATAGTTGGTATTGCATATGCTATGGATCTCCTAGATTATGTTCCAAAG                         GGTAAATTGCTTGAAAGTACCACTGTGGTGGACA
genomic: ACATAGTTGGTATTGCATATGCTATGGATCTCCTAGATTATGTTCCAAAGgtctggctgc ... tgttttgcagGGTAAATTGCTTGAAAGTACCACTGTGGTGGACA