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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatttttcgtttctatattgtatatgaatgagtaaataacttccagttactgactaattttatgtcgtttgtaactttacctgatagGTCATGTATGACTATGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACTGCAAGGTGGTCCACATAATCACACTATAACGGGTCTAGCAGTTGCTCTGA

Basic information

species Arabidopsis thaliana
transcript AT5G26780.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 9
----------gtgaattt---ttcgtttctatattgtatatgaatgagtaaataacttccagttactgactaattttatgtcgtttgtaactttacctgatagGTCATGTATGACTATGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACTGCAAGGTGGTCCACATAATCACACTATAACGGGTCTAGCAGTTGCTCTGA
          ||  | ||    || ||| | | |  | | | |     |   | |  |   || ||     ||  || | |  ||  | | |  | |  | ||||  ||||||||||||| |||||||| ||||| ||||||||||||||||| |||||||||||||| |||||||||||  | ||  |||||||||| ||||
tgctttgagggtcgagttaggctcatttttttttcatttgtaaccattt---tgaagttgggtaacctgaaaaagttctttatttgctgaatccatcctacagGTGTTGTATGACTATGAAGACAGAATAAATCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCTGGCTTAGCAGTTGCACTGA

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA14G36280.2 (Glycine max), 3'ss of exon 9
----gtgaatttttcgtttc-tatattgtatatgaatgagtaaataacttccagtt-----actgactaattttatgtcgtttgtaactttacctgatagGTCATGTATGACTATGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACTGCAAGGTGGTCCACATAATCACACTATAACGGGTCTAGCAGTTGCTCTGA
     |||   ||  |||      ||| | | |  ||  ||||  |  |   ||||     ||     ||  || | |  ||| | | |  | || | ||||  ||||||||||||| |||| ||| || || ||||||||||||||||| |||||||||||||| |||||||||||  | ||  |||||||||| ||||
tgctttgagggttgagttaggctcattttgttttcatttgtaaccatttcaaagttgggtaacctgaaaaaattctttattttctgaatccatcttacagGTGTTGTATGACTATGAAGACAAAATAAACCAGGCTGTTTTTCCTGGACTTCAAGGTGGTCCACACAATCACACTATTTCAGGCTTAGCAGTTGCACTGA

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 9
-------------gtgaatttttcgtttctatattgtatatgaa-tgagtaaataacttccagttactgactaattttatgtcgtttgtaactttacctgatagGTCATGTATGACTATGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACTGCAAGGTGGTCCACATAATCACACTATAACGGGTCTAGCAGTTGCTCTGA
             |   ||  ||  ||||  | ||| |    || |   ||| | | ||    |     ||  |||||     | ||| || |  | |  | ||||  ||||||||||||| |||| ||| ||||| ||||| ||||||||||| |||||||| ||||| ||||| |||||  | ||  ||||||||||  |||
tttttccccaattggttatggtttctttcagttttgaaagcaaaattcataagtgaatt---atctggcacacatttttcaatggttg-aattccatcctacagGTGTTGTATGACTATGAAGACAAAATCAATCAGGCTGTCTTTCCTGGACTTCAAGGTGGACCACACAATCATACTATTTCTGGCTTAGCAGTTGCATTGA

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|164213695|gb|ES162797.1|ES162797
EST:     TATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAG                         GTCATGTATGACTATTGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACT
genomic: TATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAGgtgaattttt ... tacctgatagGTCATGTATGACTAT-GAGGACAGAATTAATCAAGCTGTTTTTCCTGGACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaataacttccagttactgactaattttatgtcgtttgtaactttacctgatagGTCATGTATGACTATGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACTGCAAGGTGGTCCACATAATCACACTATAACGGGTCTAGCAGTTGCTCTGA
                                          ctttacct  CT-rich tract
                    actaattttat  TA-rich tract