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'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtgcatatattataatgaacctcccttgttataatttcgtaaatatcatgaaatttgtatatagcttcttgattcttgtaaattcttttggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTGGATGAGCAGAAGGAGATCTCGAAGTTAATTAAGAATGAG

Basic information

species Vitis vinifera
transcript Vv01s0026g01700.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g01700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G558539_T02 (Zea mays), 3'ss of exon 5
tggtgcatatattataatgaacctcccttgttataatttcgtaaatatcatgaaatttgtatatagcttcttgattcttgtaaatt--cttttggtgat-cagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTGGATGAGCAGAAGGAGATCTCGAAGTTAATTAAGAATGAG
      | || |  | |||  ||     ||||||  |||    | | |  |  |     ||| | |||     | |  || ||  |  || ||| | || |||||  | |||||||||||||||||||| ||||| || ||||| |  ||| ||||| |||||||||   | ||      ||| |   |||| 
catcagaaatctgttgatg--ccgttgctgttatctttttagtagtttgttttacaacctatgt-gctctcaaaatactgaaacctggctcttgtttatacagGCTGCTAAAAGGCATTTGACACAGCGCATTGAAAAGTTGGACGATAAATTGGATCAGCAGAAGGCTCTATCTGGACAAATAAGAGATGAT
















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|30125948|gb|CB911287.1|CB911287
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|110693432|gb|EE069656.1|EE069656
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|161717886|gb|FC065984.1|FC065984
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|30137104|gb|CB922442.1|CB922442
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|71884005|gb|DT033060.1|DT033060
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|71884658|gb|DT033713.1|DT033713
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|161718575|gb|FC069322.1|FC069322
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|161719703|gb|FC069425.1|FC069425
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|71857008|gb|DT006063.1|DT006063
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|110722964|gb|EE099738.1|EE099738
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|110361687|gb|EC925180.1|EC925180
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|22011799|gb|BQ796833.1|BQ796833
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|110713393|gb|EE089276.1|EE089276
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
EST: gi|161720924|gb|FC070664.1|FC070664
EST:     CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCT                         GCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG
genomic: CGGTTACAAACTTGAAAAAGCATCTGGAGCATGTCTCAGACGCTCTTTCTgtaagtctta ... tggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcatgaaatttgtatatagcttcttgattcttgtaaattcttttggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTGGATGAGCAGAAGGAGATCTCGAAGTTAATTAAGAATGAG
                       tcttgat  putative branch site (score: 4)
                                       ttctttt  putative PPT
     tgaaatttgtatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggtgcatatattataatgaacctcccttgttataatttcgtaaatatcatgaaatttgtatatagcttcttgattcttgtaaattcttttggtgatcagGCAACAAAAAGGCATTTGACACAGCGAATTGAGAATTTGGATGGAAAACTGGATGAGCAGAAGGAGATCTCGAAGTTAATTAAGAATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- gtgcata
- - - - - - - - - - acctccc
- - - - - - - - - - - - - - - - - - - - - - - - catgaaa