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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcctatcatgtgtcaactgactttctgcaataataacattccatgatgacagcatgtggtttaattgcaagagaaagatatgatgttatcttcttacagGGGGTTGCTGATCGGGTTTGTCTTGGTCTCCTTCCATCAAGTGAGGGTAGCTGGGCCACTGCTGTAAGGGCATTAAG

Basic information

species Vitis vinifera
transcript Vv10s0116g01770.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g01770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G39030.1 (Glycine max), 3'ss of exon 8
ttcctatcatgtgtcaactgactttctgcaataat----aacattccatgatgacagcatgtggtttaattgcaagagaaagatatgatgttatcttcttacagGGGGTTGCTGATCGGGTTTGTCTTGGTCTCCTTCCATCAAGTGAGGGTAGCTGGGCCACTGCTGTAAGGGCATTAAG
    | | |||| | |    | |   ||||  |||    |||| |   ||||    | |   ||    | |  ||  |||     |||| || || | |||||| | || |||||| | ||||||||||||||| ||||||| ||||||  |||||||| ||| ||||||||||| |||||
---gtgtgatgtctaaggaaaatgggtgcatcaatttttaacactaattgatatatgtagaaggaaataatttaatggaatctgttgatttt-tcattttacagAGTGTGGCTGATAGAGTTTGTCTTGGTCTCATTCCATCTAGTGAGCTTAGCTGGGTCACAGCTGTAAGGGCTTTAAG

upper sequence: Vv10s0116g01770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G01710.1 (Glycine max), 3'ss of exon 7
--ttcctatcatgtgtcaactgactttctgcaataataacattccatgatg-acagcatgtggtttaattgcaagagaaagatatgatgttatcttcttacagGGGGTTGCTGATCGGGTTTGTCTTGGTCTCCTTCCATCAAGTGAGGGTAGCTGGGCCACTGCTGTAAGGGCATTAAG
   |  | || |  |  || ||  | | |  | |  ||||| |   ||||| |       |    |||||  || ||||     |||| || || | |||||| | || |||||| | || |||||||||||| ||||||| ||||||  |||||||| ||| ||||||||||| |||||
gtgtgatgtcttaggaaaa-tgggtctatcaattcttaacactatttgatgtatgtagaataaaataatt-taacagaatctgttgattttttcat-ttacagAGCGTGGCTGATAGAGTCTGTCTTGGTCTCATTCCATCTAGTGAGCTTAGCTGGGTCACAGCTGTAAGGGCTTTAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgacagcatgtggtttaattgcaagagaaagatatgatgttatcttcttacagGGGGTTGCTGATCGGGTTTGTCTTGGTCTCCTTCCATCAAGTGAGGGTAGCTGGGCCACTGCTGTAAGGGCATTAAG
              gtttaat  putative branch site (score: 4)
                                         ttatcttctt  putative PPT
               tttaatt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcctatcatgtgtcaactgactttctgcaataataacattccatgatgacagcatgtggtttaattgcaagagaaagatatgatgttatcttcttacagGGGGTTGCTGATCGGGTTTGTCTTGGTCTCCTTCCATCAAGTGAGGGTAGCTGGGCCACTGCTGTAAGGGCATTAAG

- - - -catgtgt
- - - - - - - - - - - - -ctgcaat
- - - - - - - - - - - - - - - - aataaca
- - - - - - - - - - - - - - - - - - - - -ccatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagagaa