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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccgtgtctaagaaatatttacttctggtcttaactctgtatggcttgtaagaagtcacttgctggtattgacatctattacgatttatgtgcagAAAAAAGCTGTGATACAGCACCTTTACATGGGAAGAAACCCACCTCTGTTGACTGATATTAGGGTCCTTCGTCAATCTACGGGTGATGATCACTTG

Basic information

species Arabidopsis thaliana
transcript AT1G53590.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G53590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G33580.1 (Glycine max), 3'ss of exon 3
gtatccgtgtctaagaaatatttacttctggtcttaactctgtatggcttgtaagaagtcacttgct-------ggtattgacatctattacgatttatgtgcagAAAAAAGCTGTGATACAGCACCTTTACATGGGAAGAAACCCACCTCTGTTGACTGATATTAGGGTCCTTCGTCAATCTACGGGTGATGATCACTTG
   |  ||   | | |  | |||| || || |  |     | ||    ||  |      |   || |       | |||||||||| ||     | ||| |||||||| |||||||  | |||||||| ||||||||||||||||||||| || | |||||  ||||||| ||||| ||   |   | |||||||||||||
---ttggtccattatatgt-tttatttatgtttgtgtgaatataaaattttcacttcaacttctggtatgataagatattgacatccat-gtactatatttgcagAAAGAAGCTGTCGTTCAGCACCTATACATGGGAAGAAACCCACCTTTGATCACTGAAGTTAGGGTTCTTCGCCAGAGT---GATGATGATCACTTG

upper sequence: AT1G53590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G39380.1 (Glycine max), 3'ss of exon 3
gtatc-cgtgtctaagaaatatttacttctggtcttaactctgtatggc--ttgtaagaagtcacttg--ctggtattgacatctattacgatttatgtgcagAAAAAAGCTGTGATACAGCACCTTTACATGGGAAGAAACCCACCTCTGTTGACTGATATTAGGGTCCTTCGTCAATCTACGGGTGATGATCACTTG
  ||    ||| | ||  || ||||  | || | | ||      || |   ||  ||    |    ||  |   ||||||||||| |     | ||| |||||||| |||||||  | |||||||| ||| ||||||||||||||||| || | |||||  |  | || ||||| ||   |   | |||||||||||||
-cattatatgttttagttatttttatgtttg-tgtgaatataaaattgtcatttcaacttctggtatgatcaaatattgacatctgt-gtactgtatttgcagAAAGAAGCTGTTGTTCAGCACCTATACTTGGGAAGAAACCCACCTTTGATTACTGAAGTCCGCGTTCTTCGCCAGAGT---GATGATGATCACTTG

upper sequence: AT1G53590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv19s0138g00140.t01 (Vitis vinifera), 3'ss of exon 3
----gtatccgtgtctaagaaat--atttacttctggtcttaactctgtatggcttgtaagaagtcacttgctggtattgacatctat-tacgatttatgtgcagAAAAAAGCTGTGATACAGCACCTTTACATGGGAAGAAACCCACCTCTGTTGACTGATATTAGGGTCCTTCGTCAATCTACGGGTGATGATCACTTG
     | | | |   ||  || |  || || |||| |||   | | ||| |  |   |||     | ||   || |||| | |  ||  |   ||  || ||||||| |||||  |  | |||||| | ||||||||||||||||||||| |||| || || || |||||| ||||| ||||||| | |||||||||||||
actgatgtgctttgttagaaattgcatgtatttcttgtcaggaatttgtgtttccattaa-----ctctgtttgttattaataattaaatttaatgcatatgcagAAGAAAGCCATTGTTCAGCACTTGTACATGGGAAGAAACCCACCTATGTTCACAGAAATGAGGGTCATTCGTGAATCTACAGATGATGATCACTTG

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|164054932|gb|ES027547.1|ES027547
EST:     TGGGTCCAATCATACCTTGGTTCTTGGAAAA-TATAGACCTTGGACAGCG                         AAAAAAGCTGTGATACAGCACCTTTACATGGG
genomic: TGGGTCCAATCATACCTTGGTTCTTGGAAAAATATAGACCTTGGACAGCGgtatccgtgt ... ttatgtgcagAAAAAAGCTGTGATACAGCACCTTTACATGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggcttgtaagaagtcacttgctggtattgacatctattacgatttatgtgcagAAAAAAGCTGTGATACAGCACCTTTACATGGGAAGAAACCCACCTCTGTTGACTGATATTAGGGTCCTTCGTCAATCTACGGGTGATGATCACTTG
                          tattgac  putative branch site (score: 2)
                                 atctatta  TA-rich tract