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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAAGGGCAGTGCATCTTTCAAGGAATCTGGTCTTTTTGGAGTTTCACTTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggcttagtcaattttgatttcttccatggcagaaaattttgttgcttatttacaaaaattcagaactaacagtaattctacatgggaatttagtg...

Basic information

species Vitis vinifera
transcript Vv19s0014g03160.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g03160.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA12G35050.1 (Glycine max), 5'ss of exon 2
GGGAAGGGCAGTGCATCTTTCAAGGAATCTGGTCTTTTTGGAGTTTCACTTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaa--tggcttagtcaattttgatttcttccatggcagaaaattttgttgcttatttacaaaaattcagaac-taacagtaattctacatgggaatttagtg
|| ||| |  |||  ||| ||||||| ||     | || ||  ||||| ||||||| | | |||| ||| |||||||||||||||||||||||  ||||||||  |    ||     || ||  ||||||  |     |  |||  | || || ||    |    | || |  | |  ||| || ||| |       |    
GGAAAGAGTGGTGTGTCTCTCAAGGACTCCACCTTGTTCGGTCTTTCATTTTCAGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGgtaagttaaactaaagctttctgtcttcttct-taattcatcattaagctgtttcttacttatctctgagtatattatggta-ttttactttatttcctttc-

upper sequence: Vv19s0014g03160.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA12G35050.2 (Glycine max), 5'ss of exon 2
GGGAAGGGCAGTGCATCTTTCAAGGAATCTGGTCTTTTTGGAGTTTCACTTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaa--tggcttagtcaattttgatttcttccatggcagaaaattttgttgcttatttacaaaaattcagaac-taacagtaatt--ctacatgggaatttagtg
   ||| |  |||  ||| ||||||| ||     | || ||  ||||| ||||||| | | |||| ||| |||||||||||||||||||||||  ||||||||  |    ||     || ||  ||||||  |     |  |||  | || || ||    |    | || |  | |  ||| ||  ||  ||     || ||  
---AAGAGTGGTGTGTCTCTCAAGGACTCCACCTTGTTCGGTCTTTCATTTTCAGAACCTATCAAAGCTAACTTCAGCTCTTCTGCATTGAGGTGCAAGGTAAgttaaactaaagctttctgtcttcttct-taattcatcattaagctgtttcttacttatctctgagtatattatggtattttactttatttcctttcagaa
















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|349825166|gb|FQ415713.1|FQ415713
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351014316|gb|FQ437318.1|FQ437318
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|161708278|gb|FC057463.1|FC057463
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|71869221|gb|DT018276.1|DT018276
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351014319|gb|FQ437321.1|FQ437321
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349825165|gb|FQ415712.1|FQ415712
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349828186|gb|FQ415514.1|FQ415514
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351043250|gb|FQ443971.1|FQ443971
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349825101|gb|FQ415648.1|FQ415648
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349823391|gb|FQ402590.1|FQ402590
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351012575|gb|FQ430139.1|FQ430139
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|37188642|gb|CF607991.1|CF607991
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|110731615|gb|EE106182.1|EE106182
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351042481|gb|FQ429241.1|FQ429241
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349832270|gb|FQ420831.1|FQ420831
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351048774|gb|FQ449642.1|FQ449642
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351033062|gb|FQ446415.1|FQ446415
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349807157|gb|FQ401148.1|FQ401148
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|18458841|gb|BM437119.1|BM437119
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|110693994|gb|EE070714.1|EE070714
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|71874159|gb|DT023214.1|DT023214
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349828187|gb|FQ415515.1|FQ415515
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351028641|gb|FQ446314.1|FQ446314
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|77580174|gb|DV218989.1|DV218989
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|71869540|gb|DT018595.1|DT018595
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|71865328|gb|DT014383.1|DT014383
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|110693068|gb|EE068976.1|EE068976
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349829235|gb|FQ419767.1|FQ419767
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|349827196|gb|FQ421469.1|FQ421469
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351022959|gb|FQ428868.1|FQ428868
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|351024442|gb|FQ426251.1|FQ426251
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAAAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
EST: gi|110700041|gb|EE077629.1|EE077629
EST:     TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAG                         AGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG
genomic: TTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggctt ... atcgaaacagAGAAAACCATCCGTTGGAGCTATCAGAGCCCAGACCGCAGCTACAACTCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGAAGGGCAGTGCATCTTTCAAGGAATCTGGTCTTTTTGGAGTTTCACTTTCAGACCATGTCAAGGCTGACTTCAGCTCTTCTGCATTGAGGAACAAGgtaatggcttagtcaattttgatttcttccatggcagaaaattttgttgcttatttacaaaaattcagaactaacagtaattctacatgggaatttagtg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacagtaa