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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTGACAGTGGAATATCATTCAATGTCCAGCCAAAGATGAAAGCTCTGGAAATTGGTGAGAAGGCAAGGGATGCAATCCTTAGTGGCAAGTTTGATCAGgtgagatggatgcatagtcttatgatcttataatcgaacatcccaggaaataagcagtgatcatcttatgtttcaatattgattttcag

Basic information

species Arabidopsis thaliana
transcript AT1G09780.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os05g40420.1 (Oryza sativa), 5'ss of exon 7
AAGTGACAGTGGAATATCATTCAATGTCCAGCCAAAGATGAAAGCTCTGGAAATTGGTGAGAAGGCAAGGGATGCAATCCTTAGTGGCAAGTTTGATCAGgtgagatggatgcatagtcttatgatcttataatcgaacatcccaggaaataagcagtgatcatcttatgtttcaatattgattttcag
 ||||||||||| ||  ||||||||||  | || |||||||| || || || |||| |||||| || || ||||| |||||||||||||||||||| ||||| | |   |     | |  | ||    | | || |        |   | | | |  | |   |||||   |||  |  | |       
TAGTGACAGTGGTATCACATTCAATGTTAAACCCAAGATGAAGGCCCTTGAGATTGCTGAGAAAGCTAGAGATGCTATCCTTAGTGGCAAGTTTGACCAGgtaaaaaaca---gcacttgtgtgcgactttgataggtttgttaaattatttacccctaaaattcttaacattctgttcttacag----

upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g60190.1 (Oryza sativa), 5'ss of exon 7
AAGTGACAGTGGAATATCATTCAATGTCCAGCCAAAGATGAAAGCTCTGGAAATTGGTGAGAAGGCAAGGGATGCAATCCTTAGTGGCAAGTTTGATCAGgtgagatggatgcatagtcttatgatcttataatcgaacatcccaggaaataagcagtgatcatcttatgtttcaatattgattttcag
 ||||| | ||||||  ||||||||||  | || || ||||| || || |||||||  ||||| || |||||||| || |||||||| |||||||||||||| || |   ||  | |||   || ||  || |  |     |       |||   | || |  |   |  ||| | || |   ||| ||
TAGTGATATTGGAATCACATTCAATGTTAAACCCAACATGAAGGCACTTGAAATTGCAGAGAAAGCCAGGGATGCCATTCTTAGTGGAAAGTTTGATCAGgt-aggtaattgtttcgtcg-gtgctcagatgactgtttgcct------atataaaatgttgcttaaaatttttattact--cttttag

upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ26058 (Selaginella moellendorffii), 5'ss of exon 6
AAGTGACAGTGGAATATCATTCAATGTCCAGCCAAAGATGAAAGCTCTGGAAATTGGTGAGAAGGCAAGGGATGCAATCCTTAGTGGCAAGTTTGATCAGgtgagatggatgcat-agtcttatgatcttataatcgaacatcccaggaaataagcagtgatcatcttatgtttcaatattgattttcag
 || ||   ||| ||  | ||||| |  |||||||||||||||||  ||||||| |||||||||||  |||| || || || ||    |||||||||||||| |     | |  | | || |   ||| |||  |    | ||  ||                                           
TAGCGATTCTGGCATCACTTTCAACGAGCAGCCAAAGATGAAAGCCTTGGAAATCGGTGAGAAGGCGCGGGACGCCATTCTCAGCAAAAAGTTTGATCAGgtaactccaaagtttgaatcgtgccatcgtattctttctcttcttag-------------------------------------------

upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ14459 (Selaginella moellendorffii), 5'ss of exon 6
AAGTGACAGTGGAATATCATTCAATGTCCAGCCAAAGATGAAAGCTCTGGAAATTGGTGAGAAGGCAAGGGATGCAATCCTTAGTGGCAAGTTTGATCAGgtgagatggatgcata-gtcttatgatcttataatcgaacatcccaggaaataagcagtgatcatcttatgtttcaatattgattttcag
 || ||   ||| ||  | ||||| |  |||||||||||||||||  ||||||| |||||||||||  |||| || || || ||    |||||||||||||| |     | |  |   || |   |||||||  |    | ||  ||                                           
TAGCGATTCTGGCATTACTTTCAACGAGCAGCCAAAGATGAAAGCCTTGGAAATCGGTGAGAAGGCGCGGGACGCCATTCTCAGCAAAAAGTTTGATCAGgtaactccaaagtttgcatcgtcccatcttattctttcgcttcttag-------------------------------------------

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|86081556|gb|DR377313.1|DR377313
EST:     GATGCAATCCTTAGTGGCAAGTTTGATCAG                         GTGCGAGTTAACATTCCAAATGGAGATATGGTGGGTCATACAGGTGATATT
genomic: GATGCAATCCTTAGTGGCAAGTTTGATCAGgtgagatgga ... tgattttcagGTGCGAGTTAACATTCCAAATGGAGATATGGTGGGTCATACAGGTGATATT