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

TTTGTAAAGGGAGTAGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGACAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacactttaccatcattaaagaaatttactttattacttgtcttggtgataatctcactattaaaaatgttttgttaagactctttttcaaagcc...

Basic information

species Vitis vinifera
transcript Vv17s0000g09500.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA06G18530.1 (Glycine max), 5'ss of exon 2
TTTGTAAAGGGAGTAGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGACAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacactttaccatcattaaagaaatttactttatta---cttgtcttggtgataatctcactattaaaaatgttttgttaagactctttttcaaagcc
 |  | |||||||| ||||||||||||||||||||||||||||| ||||||||||||||||||||||| |||| ||||||||| |||||||||||||||||||| ||||||||||||||||||| ||| ||||| ||  ||   | || |   ||  || | | | | ||      |||    |     | | ||| |||   
CTGTTTAAGGGAGTTGCTCGAAATGGTTCTCCCCCATGGCGAGACGATGACAAAGATGGCCATTACATGTTTGAGCTTGGAGATAATTTAACTTCTCGCTgtaaatacactttaccatcattaa-gaagtttacattcatatgtcatggccaagttgtagtttaatttttcttttagttgaaattgtgatttatttgaaaa--

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA04G36360.1 (Glycine max), 5'ss of exon 2
TTTGTAAAGGGAGTAGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGACAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacactttaccatcattaaagaaatttactttattacttgtcttggtgataatctcactattaaaaatgttttgttaagactctttttcaaagcc-----
 |  | |||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||| |||| ||||||||| |||||||||||||||||||| ||||||||||||||||||| ||| ||||| ||   |  |||| |||      |  || || |     ||||||  ||| ||   |||      |      
CTGTTTAAGGGAGTTGCCCGAAATGGTTCTCCCCCATGGCGAGATGATGACAAAGATGGCCATTACATGTTTGAGCTTGGAGATAATTTAACTTCTCGCTgtaaatacactttaccatcattaa-gaagtttacatt--caaatgtcatggccgagtttgcattaatttt--tgttttagtaaaacggatttaatggacaatttt

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G13440.1 (Glycine max), 5'ss of exon 2
TTTGTAAAGGGAGTAGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGACAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacacttt-accatcattaaagaaatttactttattac---ttgtcttggtgataatctcactattaaaaatgttttgttaagactctttttcaaagcc-
||||| |||  ||| |||||||||||||||||||| |||||||| |||||||||||||| |||||||| |||||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||| ||  ||    |  || |||| ||||| | |    |  ||   |||  ||   |  |     || |    
TTTGTTAAGCCAGTTGCTCGAAATGGTTCTCCCCCTTGGCGAGATGATGACAAAGATGGGCATTACATGTTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacacttttaccatcattaa-gaaatttacattcatatatatcatcatggttataattttagagctgtaatcatttgcttgcaaaaca----cagaattc

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA05G02740.1 (Glycine max), 5'ss of exon 2
TTTGTAAAGGGAGTAGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGACAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacacttt-accatcattaaagaaatttactttattacttgtcttggtgataatctcactattaaaaatgttttgttaagactctttttcaaagcc
||||| |||  ||| |||||||||||||||||||| |||||||| |||||||||||||| |||||||| ||| |||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||| ||  ||  | || |  || | |  ||    || | | |  |        | || ||  ||     
TTTGTTAAGCCAGTTGCTCGAAATGGTTCTCCCCCTTGGCGAGATGATGACAAAGATGGGCATTACATGTTTACGCTTGGAGAAAATTTAACTTCTCGCTgtaattacacttttaccatcattaa-gaaatttacattcatatatttcatcatggtcaaatcctagttgatatttgtagagctgtaatcattggcatgcaa

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 2
TTTGTAAAGGGAGTAGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGACAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacactttaccatcattaaagaaatttactttattacttgtcttggtgataatctcactatt----aaaaatgttttgttaagactctttttcaaagcc-----------------------------------------------------------------------------
| ||| ||||| || ||||||||||||||||||||||||||||||||||| || ||||| |||||||||||||  || |||||  | |||||| | |||||||||  |||||| | || |  ||| ||   |  |||  ||    || ||  ||||   |    |||     | | | |||||| ||     ||   ||||  |                                                                             
TGTGTTAAGGGTGTGGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGATAAGGATGGACATTACATATTTGAACTGGGAGATGACTTAACTCCACGCTgtaatcccacttttctattaccaaaaaa--ctgttttgataaa-atcctgaagataccttttaaatttctctagatttttttgtcaatggctttgaacaaactctaggtgttgtggtggaccttgtgtatattgttttgatttcagtattctgatttctctatgctcttcttgttttgcag

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|71858663|gb|DT007718.1|DT007718
EST:     CAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCT                         ATAAGATCAACAGCAAGATGGGCGAAG
genomic: CAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacac ... atggctgcagATAAGATCAACAGCAAGATGGGCGAAG
EST: gi|71856051|gb|DT005106.1|DT005106
EST:     CTTGGAGAAAATTTAACTTCTCGCT                         ATAAGATCAACAGCAAGATGGGCGAAG
genomic: CTTGGAGAAAATTTAACTTCTCGCTgtaattacac ... atggctgcagATAAGATCAACAGCAAGATGGGCGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGTAAAGGGAGTAGCTCGAAATGGTTCTCCCCCATGGCGAGAAGATGACAAAGATGGCCATTACATATTTGCGCTTGGAGAAAATTTAACTTCTCGCTgtaattacactttaccatcattaaagaaatttactttattacttgtcttggtgataatctcactattaaaaatgttttgttaagactctttttcaaagcc

- - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaatg