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

gtttgttttacaaatcttgcttctgattttactaacatggatcggtataaatagatagaattgataatgatctacattgagaatagatagtctttgattatgctctcaattcaattctagGCAGAGACTAAAGTACTCAAGGGGCCACATGAGGACCTGGAAAGTTATCTGGATGCAATTGCTCAACTCAGAAAGATTATTCGTTATTTTATGAGCAACA

Basic information

species Arabidopsis thaliana
transcript AT5G03540.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G03540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 2
gtttgttttacaaatcttgcttctgattttactaacatggatcggtataaatagatagaattgataatgatctacattgagaatagatagtctttgattatgctctcaattcaattc-tagGCAGAGACTAAAGTACTCAAGGGGCCACATGAGGACCTGGAAAGTTATCTGGATGCAATTGCTCAACTCAGAAAGATTATTCGTTATTTTATGAGCAACA
                     | | ||  ||   |  |   |   |      | | |   ||  |  ||||  | |||     |  || ||  ||||  ||  | | | ||||| |  |||||||||  |||||||||||  |||||||| |||||||| ||||||||  ||||  | |||| ||| || ||||  | |||||||| |||||  |||||||
---------------------tttcatggtatggaggtctttaacttctggcacagaatgttccttttgatgcagatttcttttttattgttgttgaaaatattattatttcaacttgtagGCAGAGGGTAAAGTACTCAGAGGGCCACAGGAGGACCTAGAAAGTTACTTGGAATCTATTGATCAGCTAAGAAGCAATATTCGTTTTTTTAGCAGCAACA
















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|301502195|gb|HO207735.1|HO207735
EST:     CTCTTAAGGCTGCTGAAGTTATTTTGTCTCAATTCGATCTCCTCCGTCAG                         GCAGAGACTAAAGTACTCAAGGGGCCACATGAGGACCTGGAAAGTTATCTG
genomic: CTCTTAAGGCTGCTGAAGTTATTTTGTCTCAATTCGATCTCCTCCGTCAGgtttgtttta ... tcaattctagGCAGAGACTAAAGTACTCAAGGGGCCACATGAGGACCTGGAAAGTTATCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgatctacattgagaatagatagtctttgattatgctctcaattcaattctagGCAGAGACTAAAGTACTCAAGGGGCCACATGAGGACCTGGAAAGTTATCTGGATGCAATTGCTCAACTCAGAAAGATTATTCGTTATTTTATGAGCAACA
                          ctttgat  putative branch site (score: 5)
                           tttgattat  TA-rich tract