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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTCCCCCAACAAGTGTGCTACTGTTGGTTTTCAGGGTATTGCTTGGGCTTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctgtctttctctctctcttgctattcttttgtttgatctgctgagttctgcttttcctttgttttcttttttattttccatggtggtttgata...

Basic information

species Vitis vinifera
transcript Vv15s0046g02410.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA01G42950.1 (Glycine max), 5'ss of exon 1
AAGTCCCCCAACAAGTGTGCTACTGTTGGTTTTCAGGGTATTGCTTGGGCTTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctgtctttctctctctcttgctattcttttgtttgatctgctgagttctgcttttcctttgttttcttttttatt---ttccatggtggtttgata----------------------------------------
| | | |||||||||||  || |||||||  |||| || ||||| ||||||| ||| || |||||||| |  |||||||||||||||||||| || ||||||        | |||   | ||   |  ||   || ||  || |   ||   |    |        ||   ||  | | |     |   ||   | |||| |                                         
AGGGCACCCAACAAGTGCTCTTCTGTTGGCATTCAAGGAATTGCATGGGCTTTTGGTGGCATGATCTTTGCCCTTGTCTACTGCACTGCTGGAATATCAGgttaacataatattttggtttcatgttttaaagttatgcatg-ttaactatatatacccaaagaggtgacgtcgatctcacctggtcagataaggttttgttgttgtttaaagttatgtatgtttgaattgttgttgggacag

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA05G37730.1 (Glycine max), 5'ss of exon 1
AAGTCCCCCAACAAGTGTGCTACTGTTGGTTTTCAGGGTATTGCTTGGGCTTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgt-ctgttctgtctttctctctctcttgctattcttttgtttgatctgctgagttctgcttttcctttgttttcttttttattttc--catggtggtttgata-----------------------------------------
| ||| |||  |||||||||  |||||||  |||| || ||||||||||| | ||| || |||||||| |  |||||||||||||||||||| || |||||| |   ||  | |   |     | | | |  |||||   ||       | | || | |  ||    |  |   | |   || |    ||   |  |||| |                                          
AGGTCACCCTCCAAGTGTGCCTCTGTTGGCATTCAAGGCATTGCTTGGGCCTTTGGTGGCATGATCTTTGCCCTTGTCTACTGCACTGCTGGAATTTCAGgtacccctccttttccttagaattttaggttgtctttcacttatatacataatttttaccattttacttgtggatgtgggatctgaaacaaatttttttgttgaaaggttttgaactaagccagatctgtgtttgttgtttcag

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA08G01860.1 (Glycine max), 5'ss of exon 1
AAGTCCCCCAACAAGTGTGCTACTGTTGGTTTTCAGGGTATTGCTTGGGCTTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctgtctttctctctctcttgct-attcttttgtttgatctgctgagttctgcttttcctttgttttcttttttattt---tccatggtggtttgata------------
| ||| |||  |||||||||  |||||||  |||| || ||||||||||| | ||| || |||||||| |  |||||||||||||||||||| || |||||| |      | |||  |    | | |||   | | |  | |||    |    || |  || |     | |||     | |      ||  || | ||||| |             
AGGTCACCCTCCAAGTGTGCCTCTGTTGGCATTCAAGGCATTGCTTGGGCCTTTGGTGGCATGATCTTTGCCCTTGTCTACTGCACTGCTGGAATTTCAGgtatacatattttttaccatattatggctcgatgtctgatctgaaacacatttttttttttgtttaaaggttttgaactaagccagatctgtgtttgtttgttgttgttgttgcag

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ18960 (Selaginella moellendorffii), 5'ss of exon 1
AAGTC--CCCCAACAAGTGTGCTACTGTTGGTTTTCAGGGTATTGCTTGGGCTTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgt-ctgttctgtctttctctctctcttgctat-tcttttgtttgatctgctgagttctgcttttcctttgttttcttttttattttccatggtggtttgata---
  |||   | || ||  ||   |   || ||  | ||||| || || ||||||| |||||| |||||||| | ||| ||||||||||||||||| ||||||||| |     ||  ||| | | | || ||  |  | |  |||| ||   ||| |  | || | || |     ||| | |    | |    || ||    || |   
--GTCGATCGCACCAGCTGCCTTGGAGTGGGCATCCAGGGCATCGCGTGGGCTTTTGGGGGCATGATCTTTGCTCTCGTCTACTGCACTGCTGGAATCTCAGgtaccaagatgagtttttttgtttcctgtgaggtgtggtgttcga---gctaaagtttgttcttgcgaaactttatctcgggtgtg--gtgttgtcccgaaactt

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ11572 (Selaginella moellendorffii), 5'ss of exon 1
AAGTC--CCCCAACAAGTGTGCTACTGTTGGTTTTCAGGGTATTGCTTGGGCTTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgt-ctgttctgtctttctctct-ctcttgcta-----ttcttttg---tttgatctgctgagttctgcttttcctttgttttcttttttattttccatggtggtttgata------------------------------------------------------------------------------
  |||   | || ||  ||   |   || ||  | ||||| || || ||||||| ||| || |||||||| | ||| |||||||||||||| || ||||||||| |     ||  ||| |   |  ||  ||||     |||||  |    || | ||   | ||  || | | ||     |||  |  |  || |   |   | || |  |                                                                              
--GTCGATCGCACCAGCTGCCTTGGAGTGGGCATCCAGGGCATCGCGTGGGCTTTTGGAGGCATGATCTTTGCTCTCGTCTACTGCACTGCCGGAATCTCAGgtaccaagatgagttttttggtgttcgagctaaagtgttcttgcgaaactttacctcgggtgtggtgttgtcccgaaactttggtgct-gttctagctaaagtttcgcgagttctagtgttccagcgaaagttttcgtgcgagactggaaaccatagctaaaagcttgacatgttttgtttttctcag

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|351014038|gb|FQ434190.1|FQ434190
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|37190083|gb|CF609432.1|CF609432
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351039371|gb|FQ461238.1|FQ461238
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351047812|gb|FQ459032.1|FQ459032
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|349819395|gb|FQ412289.1|FQ412289
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|110702772|gb|EE079034.1|EE079034
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|349818459|gb|FQ401073.1|FQ401073
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|349814380|gb|FQ398820.1|FQ398820
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351048846|gb|FQ449714.1|FQ449714
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|71875538|gb|DT024593.1|DT024593
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|37189323|gb|CF608672.1|CF608672
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|110699569|gb|EE076680.1|EE076680
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|37189596|gb|CF608945.1|CF608945
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|349833149|gb|FQ416527.1|FQ416527
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAA                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351046579|gb|FQ453195.1|FQ453195
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351047271|gb|FQ454882.1|FQ454882
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|77584848|gb|DV221502.1|DV221502
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351026354|gb|FQ428366.1|FQ428366
EST:     TTGT-GGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTCGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|349811111|gb|FQ406123.1|FQ406123
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351056171|gb|FQ453633.1|FQ453633
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|349829907|gb|FQ422220.1|FQ422220
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|351012484|gb|FQ427085.1|FQ427085
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAAGAAAGC
EST: gi|37190227|gb|CF609576.1|CF609576
EST:     TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAG                         GAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAA
genomic: TTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctg ... gtttgggcagGAGGGCACATAAACCCAGCGGTGACATTTGGGCTGCTCTTGGCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGTCCCCCAACAAGTGTGCTACTGTTGGTTTTCAGGGTATTGCTTGGGCTTGTGGGGGTATGATCTTCGTTCTTGTCTACTGCACTGCTGGTATCTCAGgtctgttctgtctttctctctctcttgctattcttttgtttgatctgctgagttctgcttttcctttgttttcttttttattttccatggtggtttgata

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