Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaattccctcacctttccttttgttcctaacgctatgaattcttcctcggactgtaattgttttcccccgttatgattgcagCTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTAATTTCTAAAGTTTCAATGCTCGGGAACCCTACGGATTCGATTTGGTGCCCGACAAAACATCTAC

Basic information

species Arabidopsis thaliana
transcript AT3G25040.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25040.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G46570.1 (Glycine max), 3'ss of exon 5
---------gtaacaattccctcacctttccttttgttcctaacgctatgaattcttcctcggactgtaatt---gttttcccccgttatgat-tgcagCTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTAATTTCTAAAGTTTCAATGCTCGGGAACCCTACGGATTCGATTTGGTGCCCGACAAAACATCTAC-----
            ||  |||  |  | |  | ||   ||  | | | | ||| | |||  ||   |||   ||   |  ||      || ||   |||||||||||||||||||||||||| || || ||||| | | ||   |   |||  | || |  |||   | || |   | | |       |||  |     |      
gtaatttggcctacttttcagttccataactttcatttatttatgttgtgagtccttgttcat-ctgagttttgagcatttaaaaattgtgccgtgcagCTGGAAGAACAACAAAAAGCTTCATTTGCCAGCATGAGTTT--ATTCTTCTGTTCTTGAAAAC---AAGGGTCTAAGTGGACAATTAACAGTAAGCAGAGAGGAT

upper sequence: AT3G25040.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G35390.1 (Glycine max), 3'ss of exon 5
gtaacaattccctcacctttcc-ttttgttcctaac-gctatgaattcttcctcggactgtaatt---gttttcccccgttatgat-tgcagCTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTA-----ATTTCTAAAGTTTCAATGCTCGGGAACCCTACGGATTCGATTTGGTGCCCGACAAAACATCTAC
     ||||  |  || ||||  ||   ||  ||   | ||| | | |||  ||   ||| | ||   |  ||      || ||   |||||||||||||||||||||||||| || || ||||| |      |||  |    | | ||      ||  |  |  |||         |||  |   | |  |||   
---taaattgacctacttttcagttccatttatatttgttatcagtccttgttcat-ctgaattttgagcatttaaaaattgtgccgtgcagcTGGAAGAACAACAAAAAGCTTCATTTGCCAGCATGAGTGTATTCTTCTGTTCTTAAAAACAAGGGTCTATGTGGACAATTAACAGTGAGCAG-AGAGGATC---
















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|124877809|gb|EH957246.1|EH957246
EST:     TTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAG                         CTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTAATTTCTAAAGTTTCA
genomic: TTTGTTCAAACACTGCTCTATGCCGACTTCTTCTATTATTATTTCCTAAGgtaacaattc ... atgattgcagCTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTAATTTCTAAAGTTTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacgctatgaattcttcctcggactgtaattgttttcccccgttatgattgcagCTGGAAGAACAACAAAAAGCTCCAATTACCAGCTTAATTTCTAAAGTTTCAATGCTCGGGAACCCTACGGATTCGATTTGGTGCCCGACAAAACATCTAC
 tcctaac  putative branch site (score: 1)
                                 ttttcccccgttat  putative PPT
                           taattgtttt  TA-rich tract