Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggattttgtgtttgatgcatagtagaagcatctgcctgccctttctggttccaattcatcaaaagcaagggcctacataatgttctatttttctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGAGGCTGTACAGAATTGTGTCTGTGGAGGGACACCAAATGATTCAAGACGT

Basic information

species Vitis vinifera
transcript Vv10s0003g02250.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g02250.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G09630.2 (Glycine max), 3'ss of exon 4
gtaag--gattttgtgtttg-atgcata-gtagaagcatc-tgcctgccctttctggttccaattcatcaaaagcaagggcctacataatgttctatttttctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGAGGCTGTACAGAATTGTGTCTGTGGAGGGACACCAAATGATTCAAGACGT--
|| ||  || ||  | | ||  ||| || | |   | ||  |    |    |  ||  ||    | |      |   |    |   |  || | ||| | |      |||||||||||||||||||||||||||| ||| || |||  ||||    ||||| | | || ||  || | |   |||| | | |  ||   || ||  || |  
gtgagcagaattactatctgtgtgcttatgcatttgtataataatggtttatcttgagtcgggctaacttttggtttgtttttgtgtgttgctatatatctt-----cagGAGGATGCAAAGAAGCTTGACAGAGGTGCTAAAAATAAATACGTTGTATGAAGTT-TATAGCGTTCT-TAACTGGAAGCAAATGAAGGAATGCAGTACATTC
















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|351030478|gb|FQ432416.1|FQ432416
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGA
EST: gi|351043287|gb|FQ444008.1|FQ444008
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|351024812|gb|FQ430637.1|FQ430637
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACGCGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|30129785|gb|CB915124.1|CB915124
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110718702|gb|EE095839.1|EE095839
EST:     AATGGAAGGGATTTCCGGATTACAGCGAA-GCTTAGGCTTCCTATTTCAT                         GAGGATGCAAAGAA-CTTGACAGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGA
EST: gi|33403709|gb|CF209336.1|CF209336
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|351041261|gb|FQ447388.1|FQ447388
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCC
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCC
EST: gi|351013219|gb|FQ424924.1|FQ424924
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACGCGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|349830175|gb|FQ420435.1|FQ420435
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|32245049|gb|CD710868.1|CD710868
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110401164|gb|EC967763.1|EC967763
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110372842|gb|EC937036.1|EC937036
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|30126189|gb|CB911528.1|CB911528
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110370659|gb|EC930270.1|EC930270
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110729229|gb|EE105336.1|EE105336
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTG
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTG
EST: gi|32245302|gb|CD711121.1|CD711121
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|351027029|gb|FQ439889.1|FQ439889
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAACTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110722220|gb|EE098261.1|EE098261
EST:     TGGAAGGGATTTTTTGGATTACAGCGAAAGCATAGGCCTT-ATATTTCAT                         GAGGATGCCAAGAAGCTTG
genomic: TGGAAGGAATTTCT-GGATTACAGCGAAAGCATAGGC-TTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTG
EST: gi|349809854|gb|FQ398479.1|FQ398479
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|26263843|gb|CA814906.1|CA814906
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|27586581|gb|CB009276.1|CB009276
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|351012448|gb|FQ427049.1|FQ427049
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACGCGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|27583054|gb|CB005749.1|CB005749
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|349825143|gb|FQ415690.1|FQ415690
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110402114|gb|EC968749.1|EC968749
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAAGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110713254|gb|EE089012.1|EE089012
EST:     ATGGAAG-AATTTCTGGATTACAGCGAAAGCATAAGGCTCC-TATTTCAT                         GAGGATGCAAAAAAGCTTGAC-GAAGCTGCCAAGAATCGA
genomic: ATGGAAGGAATTTCTGGATTACAGCGAAAGCATA-GGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGA-GCTGCCAAGAATCGA
EST: gi|110367998|gb|EC931958.1|EC931958
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110401693|gb|EC968309.1|EC968309
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110426279|gb|EC992681.1|EC992681
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110360035|gb|EC922556.1|EC922556
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|351030954|gb|FQ438990.1|FQ438990
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACCATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|110427923|gb|EC994379.1|EC994379
EST:     AATGGAAGGAATTTCTGGATTACAGTGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
EST: gi|351012919|gb|FQ430482.1|FQ430482
EST:     AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCAT                         GAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA
genomic: AATGGAAGGAATTTCTGGATTACAGCGAAAGCATAGGCTTCATATTTCATgtaaggattt ... tctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttccaattcatcaaaagcaagggcctacataatgttctatttttctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGAGGCTGTACAGAATTGTGTCTGTGGAGGGACACCAAATGATTCAAGACGT
                                    ttctatttttctgtt  CT-rich tract
                              ataatgttctattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggattttgtgtttgatgcatagtagaagcatctgcctgccctttctggttccaattcatcaaaagcaagggcctacataatgttctatttttctgttacagGAGGATGCAAAGAAGCTTGACAGAGCTGCCAAGAATCGATACACGATATGAGGCTGTACAGAATTGTGTCTGTGGAGGGACACCAAATGATTCAAGACGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG