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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCAATCTGCATTATGAGCCACCCAATCCCAAACACCAGTGATTCTCACTCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctctttcacttccattaatttgtcaggtttatttgctaagctgattaggtgattgcaagaagagagacaagtcctttatttttttggattggg...

Basic information

species Vitis vinifera
transcript Vv05s0094g01550.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0094g01550.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA05G30140.2 (Glycine max), 5'ss of exon 10
GAGCAATCTGCATTATGAGCCACCCAATCCCAAACACCAGTGATTCTCACTCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctctttcac--ttccattaatttgt-caggtttatttgctaagctgattaggtgattgca-agaagagagacaa-gtcctttatttttttggattggg
| || ||   ||| ||||||||||||||||| | |||   |||||| || ||||| ||  ||||||| || || || ||||||||||| |||||||||||||  |||  | | ||   |   ||  || | |  |  | ||| |    |  |   |||   |||    |  |  || |||| ||   | ||  |  |||      
GGGCGATAGCCATCATGAGCCACCCAATCCCCAGCACTGATGATTCCCATTCAGTGCAAATTATTTTACCACAGAAACAGTTGGGTCGGAAGTCAGACATgtaagttgacatgcagcatgttatatatatatatatatatatatatatatatttctagaaaattttgcaatactgatacaatgtatatcatgctactggg-----
















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|110701800|gb|EE079788.1|EE079788
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110700674|gb|EE077534.1|EE077534
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|22007169|gb|BQ792203.1|BQ792203
EST:     CAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTGGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: CAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110371128|gb|EC934907.1|EC934907
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|33406671|gb|CF212298.1|CF212298
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCGGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|352777878|gb|FQ466931.1|FQ466931
EST:     TCAGTTCGGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTTTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|352782310|gb|FQ470212.1|FQ470212
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCT-CCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110692608|gb|EE072046.1|EE072046
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110728096|gb|EE103364.1|EE103364
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110731100|gb|EE108936.1|EE108936
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|37188887|gb|CF608236.1|CF608236
EST:     TTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|30323326|gb|CD006588.1|CD006588
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110700715|gb|EE077610.1|EE077610
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|30137389|gb|CB922727.1|CB922727
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|33406756|gb|CF212383.1|CF212383
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCGGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110371769|gb|EC935892.1|EC935892
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|37183843|gb|CF603197.1|CF603197
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|352768234|gb|FQ469409.1|FQ469409
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|71888788|gb|DT037843.1|DT037843
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110692538|gb|EE071896.1|EE071896
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
EST: gi|110418003|gb|EC984109.1|EC984109
EST:     TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACAT                         GTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT
genomic: TCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctc ... gattgtgtagGTATCTTTTCTGTTGTTCTTATTCTCACAATGTTGCTCCCAAGGGCAAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGCAATCTGCATTATGAGCCACCCAATCCCAAACACCAGTGATTCTCACTCAGTTCAGGTTATTTTGCCGCAAAAGCAGTTGGGTCGCAAGTCAGACATgtgggttctctttcacttccattaatttgtcaggtttatttgctaagctgattaggtgattgcaagaagagagacaagtcctttatttttttggattggg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagacaa