Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agccatctttgatgcatgaaacaaggatctaagcatctgattctcaattctttgttatgcttttgatatatgtttctctttggtgctttctctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGATGGTGAAG

Basic information

species Vitis vinifera
transcript Vv14s0006g02010.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0006g02010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G18560.1 (Glycine max), 3'ss of exon 5
-----agccatctttgatgcatgaaacaaggatctaagcatctgattctcaattctttgttatgcttttgatatatgtttctctttggtgctttctctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGATGGTGAAG
       | |||||      ||| | | |  |||||| |||     |  || ||   ||  |||    | | | ||  ||||  |||||||||   || ||| |||| || || ||||||||| | ||||||||||||||||||||||| ||||  |  |   
ttctttccaatcttatccaaatgcacctaaaatctaatcatac--ctgccattttcatgcaatgtacataacaaat--ttctgcttggtgcttctgct-tttcagCCAACGCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG---
















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|110391364|gb|EC956333.1|EC956333
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|34416304|gb|CF415058.1|CF415058
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110374310|gb|EC939449.1|EC939449
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110419753|gb|EC986002.1|EC986002
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110727608|gb|EE104559.1|EE104559
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAGCTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|34415263|gb|CF414017.1|CF414017
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110730829|gb|EE108353.1|EE108353
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAGCTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110382977|gb|EC947311.1|EC947311
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110716041|gb|EE090674.1|EE090674
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110377450|gb|EC942515.1|EC942515
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110420660|gb|EC986936.1|EC986936
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110691516|gb|EE069706.1|EE069706
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110429146|gb|EC995635.1|EC995635
EST:     CTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: CTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110687340|gb|EE064675.1|EE064675
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110406014|gb|EC971572.1|EC971572
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110687110|gb|EE064235.1|EE064235
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110379202|gb|EC944382.1|EC944382
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110416784|gb|EC982789.1|EC982789
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110426370|gb|EC992776.1|EC992776
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
EST: gi|110378112|gb|EC943228.1|EC943228
EST:     GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAG                         CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT
genomic: GTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTGCAGgtactggttt ... tctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattctttgttatgcttttgatatatgtttctctttggtgctttctctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGATGGTGAAG
               ttttgat  putative branch site (score: 4)
                           tttctctttggtgctt  putative PPT
               ttttgatatatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agccatctttgatgcatgaaacaaggatctaagcatctgattctcaattctttgttatgcttttgatatatgtttctctttggtgctttctctgttttagCCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGATGGTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-gccatct
- - - - - gatgcat
- - - - - - - - -gaaacaa
- - - - - - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - -gttatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctttc