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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGAAGGAGAGACCCACTCTCGGgtaagttttgtgatattcacaatccttattttgtaatttacctgtttggttgctgaaaaaactgaggaaaagaaaagaaaataaagttttggattttatg...

Basic information

species Vitis vinifera
transcript Vv04s0023g00670.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g00670.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA18G47780.1 (Glycine max), 5'ss of exon 2
-CTCGAAGGAGAGACCCACTCTCGGgtaagttttgtgatattcacaatccttattttgtaatttacctgtttggttgctgaaaaaactgaggaaaagaaaagaaaataaagttttggattttatg--
 ||||||||||||||||||||| |||||||||| ||  | |   |   ||| |   |   | ||   | | |  ||           |   |  ||||   |    |  | |  |  ||  | ||  
GCTCGAAGGAGAGACCCACTCTTGggtaagtttcgttctttctcc---cctcacgataatactttgttctcttcttctatgtttttgtatagctaagatgtgtttttttaatgctacatgctgtgta

upper sequence: Vv04s0023g00670.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ06557 (Selaginella moellendorffii), 5'ss of exon 2
CTCGAAGGAGAGACCCACTCTCGGgtaagttttgtgatattcacaatccttattttgtaatttacctgtttggttgctgaaaaaactgaggaaaagaaaagaaaataaagttttggattttatg
| | |||||||||||||||||||||||||   | ||| ||||     | ||  |||    ||    || || |||  |||       | | | |                              
CACCAAGGAGAGACCCACTCTCGGgtaagggctttgagattcttg--cattggttttggtttggtttggtttgttcatgatttgggcgtgtatag-----------------------------
















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|161720192|gb|FC065495.1|FC065495
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110721235|gb|EE098001.1|EE098001
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|351054991|gb|FQ440330.1|FQ440330
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|351032388|gb|FQ461641.1|FQ461641
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110723113|gb|EE100055.1|EE100055
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110689930|gb|EE066595.1|EE066595
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|71880968|gb|DT030023.1|DT030023
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|351023466|gb|FQ432849.1|FQ432849
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|351026516|gb|FQ428528.1|FQ428528
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|349810775|gb|FQ403018.1|FQ403018
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|161712997|gb|FC062419.1|FC062419
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|33407242|gb|CF212869.1|CF212869
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110688940|gb|EE068068.1|EE068068
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|349812603|gb|FQ407222.1|FQ407222
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110688724|gb|EE067604.1|EE067604
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110731965|gb|EE106840.1|EE106840
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|351016921|gb|FQ424348.1|FQ424348
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|349813885|gb|FQ414119.1|FQ414119
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|30129349|gb|CB914688.1|CB914688
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|349814805|gb|FQ410028.1|FQ410028
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110700927|gb|EE078011.1|EE078011
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|351013638|gb|FQ429779.1|FQ429779
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|349827877|gb|FQ422745.1|FQ422745
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110729615|gb|EE105755.1|EE105755
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110685192|gb|EE063331.1|EE063331
EST:     GCTCGAAGGAGACACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|351046957|gb|FQ454567.1|FQ454567
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|71870540|gb|DT019595.1|DT019595
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110699539|gb|EE076636.1|EE076636
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|349811233|gb|FQ406221.1|FQ406221
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110689548|gb|EE065870.1|EE065870
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|110724605|gb|EE100577.1|EE100577
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
EST: gi|33404953|gb|CF210580.1|CF210580
EST:     GCTCGAAGGAGAGACCCACTCTCGG                         TGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC
genomic: GCTCGAAGGAGAGACCCACTCTCGGgtaagttttg ... ttttttccagTGGCACGCGGATTAAGACCCGCAAACGGAATATTGCAGCGCCGCTGGACCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCGAAGGAGAGACCCACTCTCGGgtaagttttgtgatattcacaatccttattttgtaatttacctgtttggttgctgaaaaaactgaggaaaagaaaagaaaataaagttttggattttatg

- - AAGGAG
- -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa