Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACACAAGTTTGTCAACATACTAGATGATCCCGGGTCTGCCGATCTAAGTGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgtttcgttcctatactggctactagtcattgtgatgtaggtagggttagcttacttacttgacaaagcaaatgtgtgtgttctgcag

Basic information

species Arabidopsis thaliana
transcript AT3G28700.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G28700.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os01g40620.2 (Oryza sativa), 5'ss of exon 9
AAACACAAGTTTGTCAACATACTAGATGATCCCGGGTCTGCCGATCTAAGTGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgttt-cgttcctatactggctactagtcattgtgatgtaggtagggttagcttac--ttacttgacaaagcaaatgtgtgtgttctgcag
|| |||||||||||  ||||| | ||| | || || || |||||||| ||||||||||| || ||| | ||||| | |||||||||| |||||||||||||||| |     |||  |   | ||      | || | |    | |   ||   |   || |||   |   |     ||    ||||||||
AAGCACAAGTTTGTACACATATTGGATAACCCTGGTTCAGCCGATCTGAGTGCTTATGTTGATTTTGCATCAATCAGACACTCCGCTAAGGAAGCTTCAGgtttgcacagatatcttaaatcctttctgct-tgtttttctcatgtccagacaaacatttcttactaggtctgtcttgaactttctgcag

upper sequence: AT3G28700.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA11G10540.1 (Glycine max), 5'ss of exon 9
AAACACAAGTTTGTCAACATACTAGATGATCCCGGGTCTGCCGATCTAAGTGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgt---ttcg----ttcctatactggctactagtcat-tgt------gatgtaggtagggttagcttacttacttgac---aaagcaaatgtgtgtgttctgcag-----------------------
|||||||||||||||||| | |||||  |||| || || || ||||| ||||| ||||| |||||| |||| || |  || ||||| |||||||||||||||   || |    | | | || | | ||| |   || |||      ||   ||  |     ||  ||  || | |     ||||||||  |  || |||  |                         
AAACACAAGTTTGTCAACCTTCTAGACAATCCTGGATCAGCAGATCTCAGTGCATATGTTGACTTTGCTTCCATTAGGCATTCCGCGGAGGAAGCTTCAGgtgcgtttgcaaatgcttgtagttgttacaaactatatgttgattagaatcagacatcagaagtatatatattaggtcagaaagcaaagattagttttcgactaatttaatgattatatatatgcag

upper sequence: AT3G28700.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv14s0066g02600.t01 (Vitis vinifera), 5'ss of exon 9
AAACACAAGTTTGTCAACATACTAGATGATCCCGGGTCTGCCGATCTAAGTGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgtttcgttcctatactggctactagtcattgtgatgtaggtagggt-----------tagcttacttacttgacaaagcaaatgtgtgtg--ttctgcag-------------------------------------------
||||| ||||||||||||||| | ||| |||| |||||||| ||||| ||||| ||||| || ||| | || || |  || || ||||| ||||||||||||     ||||  |||   |  | ||  | ||     |       |           |  ||  ||  ||     | |  |||  |  |    |||| |                                            
AAACATAAGTTTGTCAACATATTGGATAATCCTGGGTCTGCTGATCTCAGTGCATATGTTGATTTTGCATCCATCAGGCATTCTGCTGAAGAAGCTTCAGgtgcatatccttaacttcttggttgtagtagtagcagaatctctctctctctctctctctctctctctctctctgacgttaataagcataaactctgaaagaggaatgaagattaattccataatattttgatgtttttacag

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|86083128|gb|DR378887.1|DR378887
EST:     CCTTCAATAAAACACTCCGCTGAGGAAGCTTCAG                         AAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGC
genomic: CCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgtttcgttcc ... tgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCCAGTTCTTGGGTTCGC
EST: gi|164146171|gb|ES016104.1|ES016104
EST:     TGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAG                         AAAATGTCTCAGTCCATGGACCTATGACTCAGTCCC
genomic: TGCTTATGTCGACTTTCCTTCAATAAAACACTCCGCTGAGGAAGCTTCAGgtttcgttcc ... tgttctgcagAAAATGTCTCAGTCCATGGACCTATGACTCAGTCCC