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

gtaatactctcgttactgtaatttctcaactatggtcttaaatcttcacaattgatatttgaacaagattcaaattgggactgttgtttacttttagcttagcctgtgtgtataacgtggtagtttattgttttgtttgaaaacctaatgctgcattgaatgcttgtaacagGTCGTGGTGGACGTTGGCTGTGGAACTGGCATCCTTTCAATCTTCTGTGCTCAAGCAGGTGCAAAACGG

Basic information

species Arabidopsis thaliana
transcript AT3G20020.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv10s0071g00750.t01 (Vitis vinifera), 3'ss of exon 2
gtaatactctcgttactgtaatttctcaactatggtcttaaatcttcacaattgatatttgaacaagattcaaattgggactgttgtttacttttagcttagcctgtgtgtataacgtggtagtttattgttttgtttgaaaacctaatgctgcattg-aatgcttgtaacagGTCGTGGTGGACGTTGGCTGTGGAACTGGCATCCTTTCAATCTTCTGTGCTCAAGCAGGTGCAAAACGG
                                                                    ||       ||  |  | |   |  ||||   |  || | ||   || |   |   ||  | ||||  ||    |   | |  |  | || |||  |  | |||||| || ||||| ||||||||||| || ||||| ||||| || || ||||||||||  ||||||||| | 
--------------------------------------------------------------------ttttggcatgggttactctggtcagttagaagactctatttggggaa-gcaatgcatttatattttactt----attcatttttttaatgtaattatgcttacagGTTGTAGTGGATGTTGGCTGTGGCACAGGCATTCTTTCCATATTTTGTGCTCAAGTTGGTGCAAAAAGA
















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|19874927|gb|AU235758.1|AU235758
EST:     AAACTTATAGGGAAGCCATAATGCAGCATCAGAGCTTAATCGAAGGCAAG                         GTCGTGGTGGACGTTGGCTGTGGAACTGGCATCCTTTCAATCTTCTGTGCT
genomic: AAACTTATAGGGAAGCCATAATGCAGCATCAGAGCTTAATCGAAGGCAAGgtaatactct ... cttgtaacagGTCGTGGTGGACGTTGGCTGTGGAACTGGCATCCTTTCAATCTTCTGTGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtagtttattgttttgtttgaaaacctaatgctgcattgaatgcttgtaacagGTCGTGGTGGACGTTGGCTGTGGAACTGGCATCCTTTCAATCTTCTGTGCTCAAGCAGGTGCAAAACGG
                         acctaat  putative branch site (score: 3)
      tttattgttttgttt  TA-rich tract