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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCAGGCCAAAACTCTCAAGGTTACTTGCAACCTCAATAATGCAGCATGCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctcccataagcatgatgagaacacctttaaacttaaaattcatgttgcacctcttttaactttgaagggatctccacatgtag

Basic information

species Vitis vinifera
transcript Vv00s0769g00010.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G349810_T01 (Zea mays), 5'ss of exon 4
GAAGCAGGCCAAAACTCTCAAGGTTACTTGCAACCTCAATAATGCAGCATGCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctcccataagcatgatgagaacacctttaaacttaaa------attcatgttgcacctcttttaactttgaagggatctccacatgtag--------
||||||  | ||    |  ||| | |  |||||| | || ||||| || ||||| ||||| ||||| ||||||||||| |||| |||||| ||||| ||||||  |    |     || || |||     ||  | | ||       |  | ||     ||| |||    | || ||  |       | | ||        
GAAGCAATCTAAGCAACCGAAGTTCAGCTGCAACTTAAACAATGCTGCCTGCAAACTGAAGTTGAAGGACTACAAGGAAGCTGCGAAGCTTTGCACCAAGgtatgttttgttta-gtggtgtgaattgtgttgcagtaaagcaggctaagcttgggattcctttttaggttctggagctagacagcaaggcagtttaattt

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: AT5G48570.1 (Arabidopsis thaliana), 5'ss of exon 10
GAAGCAGGCCAAAACTCTCAAGGTTACTTGCAACCTCAATAATGCAGCATGCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctcccataagcat-gatgagaacacctttaaac-ttaaaattcatgttgcacctcttttaactttgaagggatctc-cacatgtag
 ||| |  | |||  ||||||| || | || ||||| ||| ||||||| |||||||||||| ||||||| |||||||| || |  ||  ||| ||| ||||||    | | |    |   |   |  |  |||  |  ||| ||||   | || ||  ||   |    |||| | | |         |||
AAAGAAATCAAAAGATCTCAAGATTGCCTGTAACCTGAATGATGCAGCTTGCAAGCTGAAACTGAAAGATTACAAGGAAGCAGCAAAATTGTCCACAAAGgtaaaaacaaaacatttcagtttcagtaattttggatattacaattggagatgaacgacta--agtagtgaatgaaacgaatgtgaatag
















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|351052096|gb|FQ455389.1|FQ455389
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|351030826|gb|FQ438862.1|FQ438862
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|30125943|gb|CB911282.1|CB911282
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGGCTCA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGG-CTCA
EST: gi|32245865|gb|CD711684.1|CD711684
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|33403350|gb|CF208977.1|CF208977
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|30253340|gb|CB970891.1|CB970891
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCCCTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110690586|gb|EE067825.1|EE067825
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|30130409|gb|CB915748.1|CB915748
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|30129057|gb|CB914396.1|CB914396
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|352790570|gb|FQ478209.1|FQ478209
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110423083|gb|EC989419.1|EC989419
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|351042032|gb|FQ456242.1|FQ456242
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAN
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110398522|gb|EC964942.1|EC964942
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|83275789|gb|DV939797.1|DV939797
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110423297|gb|EC989639.1|EC989639
EST:     GCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110425665|gb|EC992054.1|EC992054
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|30136452|gb|CB921790.1|CB921790
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|30134437|gb|CB919775.1|CB919775
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|32245426|gb|CD711245.1|CD711245
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|30132983|gb|CB918322.1|CB918322
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|22011028|gb|BQ796062.1|BQ796062
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|27582480|gb|CB005175.1|CB005175
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110714352|gb|EE091161.1|EE091161
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|349830992|gb|FQ418276.1|FQ418276
EST:     GCAAGCTGGAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|349830215|gb|FQ420475.1|FQ420475
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|349829935|gb|FQ422248.1|FQ422248
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110400903|gb|EC967488.1|EC967488
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|32249958|gb|CD715777.1|CD715777
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110689806|gb|EE066352.1|EE066352
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
EST: gi|110377095|gb|EC942156.1|EC942156
EST:     GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAG                         GTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA
genomic: GCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctccca ... ccacatgtagGTTCTAGACATTCAAAGTAAGAATGTGAAGGCACTTTACAGGAGGGCTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGCAGGCCAAAACTCTCAAGGTTACTTGCAACCTCAATAATGCAGCATGCAAGCTGAAATTGAAAGACTACAAGGAGGCTGAGAAGCTGTGCACTAAGgtagctcccataagcatgatgagaacacctttaaacttaaaattcatgttgcacctcttttaactttgaagggatctccacatgtag

- - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG