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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTCTTGGGACTCTCAAGGGAAGAGGCAGAAAAGAAGCCATACATTGCTTCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaattaacactttcaagccatttaagatgaaaaatgaagctttccggcatgcttaattccaaatgcagaagagactactatttatcattgtgtgta...

Basic information

species Vitis vinifera
transcript Vv05s0020g02880.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g02880.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA17G01900.1 (Glycine max), 5'ss of exon 8
AAGTCTTGGGACTCTCAAGGGAAGAGGCAGAAAAGAAGCCATACATTGCTTCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaattaacactt---------tcaagccatttaagatgaaaaatgaagctttccggcatgcttaattccaaatgcagaagagactactatttatcattgtgtgta---------------------------------------------
  || ||||| || |||| ||| |||||  | ||||| |||||||||||||||||||||||||| |||||||||||||||||||| || ||||| |||||||||| ||||  |  |         | | ||  |||    ||    |       |      ||  |  || | |||| |||||      ||     || | |   | |                                              
CCGTGTTGGGCCTTTCAAAGGATGAGGCTCAGAAGAAACCATACATTGCTTCCATGGGAGTGTACGTCTTCAAGAAGGAGATACTTCTTAATCTATTAAGgtactgattattatctagcaaaatgttaggctttttcctgtggttcacttcatctattaatatattctatac-aaatacagaaatatgcaccgagaataaattgatcttgttccaaagcttgttttttaagtgctacaaattaatttaatttag

upper sequence: Vv05s0020g02880.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA07G38820.2 (Glycine max), 5'ss of exon 8
AAGTCTTGGGACTCTCAAGGGAAGAGGCAGAAAAGAAGCCATACATTGCTTCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaattaacac---------tttcaagccatttaagatgaaaaatgaagctttccggcatgcttaattccaaatgcagaagagactact-atttatcattgtgtgta-----------------------------------------
  || ||||| || |||| ||| |||||  ||||||| |||||||||||||||||||||||||| |||||||||||||||||||| || ||||| || ||||||| ||||  |          | | | ||  |||    ||    |              ||  || ||   |||| |||||      ||| |  |  |||||    |                                          
CCGTTTTGGGCCTTTCAAAGGACGAGGCTCAAAAGAAACCATACATTGCTTCCATGGGAGTGTACGTCTTCAAGAAGGAGATACTTCTTAATCTATTGAGgtactgattattatatagcaaaatcttaggctttttcctttggttcacttcatccattaatatattttatat-aaatacagaaatatgcactgagattacattgatattgcaaagcttgtttgttaagtgctacaaattaatttaatttag
















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|110379176|gb|EC944355.1|EC944355
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|351029658|gb|FQ427498.1|FQ427498
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|351040871|gb|FQ438415.1|FQ438415
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|351019209|gb|FQ429369.1|FQ429369
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|110379174|gb|EC944353.1|EC944353
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|351025236|gb|FQ433653.1|FQ433653
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|351013646|gb|FQ429787.1|FQ429787
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|110373811|gb|EC938181.1|EC938181
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATG
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATG
EST: gi|351015482|gb|FQ447311.1|FQ447311
EST:     TCCATGGGAGTGTATATCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|351034082|gb|FQ448000.1|FQ448000
EST:     TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
EST: gi|351013342|gb|FQ425047.1|FQ425047
EST:     TCCATGGGAGTGTATATCTTCAAGAAGGAGATACTCCTGAATCTTTTAAG                         ATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC
genomic: TCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaatta ... gttgagtcagATGGCGATTCCCGACTGCAAATGACTTCGGATCAGAGATCATCCCTGCCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGTCTTGGGACTCTCAAGGGAAGAGGCAGAAAAGAAGCCATACATTGCTTCCATGGGAGTGTATGTCTTCAAGAAGGAGATACTCCTGAATCTTTTAAGgtactaattaacactttcaagccatttaagatgaaaaatgaagctttccggcatgcttaattccaaatgcagaagagactactatttatcattgtgtgta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaagaga