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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtatgagccccaggaaatttgtcatatttccttctaatgaactcgagcttaatatttgttgtatgagtctcttgatggattcttctttttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACAAATGTAGCGGCAAGAGGATTGGACATTAATGATGTGCAGTTAATCATCC

Basic information

species Vitis vinifera
transcript Vv16s0022g02110.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G29060.1 (Glycine max), 3'ss of exon 7
----------------------------------------------------------------tttgtatgagccccaggaa---atttgtcatatttccttctaatgaactcgagcttaatatttgttgtat----gagtctcttgatggattcttctttttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACAAATGTAGCGGCAAGAGGATTGGACATTAATGATGTGCAGTTAATCATCC
                                                                |   ||||  |    | |     ||| ||| | ||  || |||| |    | |    |   |||| || |      ||||||| || |  | | || |    || |||| || || ||||| ||||||||||| ||||||||||||||||| ||||||||||| || ||  ||||  | || ||||||||||| |||||||| || |
gtgagctattacctgaagtttggtttagttattgacttatgaactgttactttaaactttgatatccttatggactgatgtattttgtttttcacaatttattttaattatagtgtgtgccacccttgtggtttcttactgtctcttaattg--tgtcctgtcccctgcagGTTACACTGTCTGGCTTTAGGTCTGGGAAATTCATGACATTAGTTGCCACAAATGTGGCAGCTCGAGGTCTTGATATTAATGATGTTCAGTTAATTATAC

upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 7
---------------------------------------------------------tttgtatgagccccaggaaatttgtcatatttccttct--aatgaactcgagct-taatatttgttgtatgagtctcttgatggattcttctttttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACAAATGTAGCGGCAAGAGGATTGGACATTAATGATGTGCAGTTAATCATCC
                                                         |||||||   ||  | | | | |   |||||   ||    |||  | |  |  | || | ||||        || | ||  |    | | || |     | |||| || || ||||| ||||||||||| ||||||||||||||||| ||||||||||| || ||  ||||  | || || |||||||| |||||||| ||||
gtgagctattacctgaattttggtttagttattgacttgtgaactgttgctttaaactttgtat---ccttatggactgttgtatattctttttcacaatttattttaattatagtgtttgccacccatgtgttttcttattgtatcctgtccccggcagGTTACTCTGTCTGGCTTTAGGTCTGGGAAATTCATGACATTAGTTGCCACAAATGTGGCAGCTCGAGGTCTTGATATCAATGATGTTCAGTTAATTATCC
















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|351046770|gb|FQ454380.1|FQ454380
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|349818664|gb|FQ403498.1|FQ403498
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351040229|gb|FQ425315.1|FQ425315
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|352790432|gb|FQ478072.1|FQ478072
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351048608|gb|FQ448882.1|FQ448882
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|161707834|gb|FC055234.1|FC055234
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351033398|gb|FQ462049.1|FQ462049
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351039800|gb|FQ464838.1|FQ464838
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|349809274|gb|FQ399048.1|FQ399048
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|352798464|gb|FQ480489.1|FQ480489
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|349812243|gb|FQ411838.1|FQ411838
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351056075|gb|FQ453536.1|FQ453536
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|71870308|gb|DT019363.1|DT019363
EST:     ATTCAGCAGTCTCAGCGTGAG                         GTCACACTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: ATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|161720948|gb|FC070676.1|FC070676
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|161721595|gb|FC070805.1|FC070805
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAACAGTCTCAGCGTGAG                         GTCACGCTTTCAGGATTTAAGTCTGGCAAATTC
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTC
EST: gi|294964618|gb|GW838421.1|GW838421
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351055609|gb|FQ452074.1|FQ452074
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|30253071|gb|CB970622.1|CB970622
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACACTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351012917|gb|FQ430480.1|FQ430480
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|110690637|gb|EE067971.1|EE067971
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351052845|gb|FQ456573.1|FQ456573
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|351035558|gb|FQ463403.1|FQ463403
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
EST: gi|349807331|gb|FQ401323.1|FQ401323
EST:     TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGGG                         GTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA
genomic: TGCCTGGAGCACGAGCTTTGCATGGGGACATTCAGCAGTCTCAGCGTGAGgtaaattttt ... tttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgagcttaatatttgttgtatgagtctcttgatggattcttctttttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACAAATGTAGCGGCAAGAGGATTGGACATTAATGATGTGCAGTTAATCATCC
                           tcttgat  putative branch site (score: 4)
                                     ttcttctttttattgt  putative PPT
      ttaatatttgttgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgtatgagccccaggaaatttgtcatatttccttctaatgaactcgagcttaatatttgttgtatgagtctcttgatggattcttctttttattgtagGTCACGCTTTCTGGATTTAGGTCTGGCAAATTCATGACATTAGTGGCCACAAATGTAGCGGCAAGAGGATTGGACATTAATGATGTGCAGTTAATCATCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - ccccagg
- - - - - - - - - - - - - - - -tccttct
- - - - - - - - - - - - - - - - - - - aatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgatg