Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAGAGCTCCAGGGCCTGGATATACTTGTGGGCCTGCCAAGATTGTAAAACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaactcactagtgcttttggccagttctacgacgttcccattcattagctaatgatgtacatatatgccagtatgttcatttagcacttcatct...

Basic information

species Vitis vinifera
transcript Vv17s0000g05070.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g05070.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA05G00210.1 (Glycine max), 5'ss of exon 3
TTGAGAGCTCCAGGGCCTGGATATACTTGTGGGCCTGCCAAGATTGTAAAACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaactcactagtgcttttggccag-ttctacgac-gttcccattcattagctaatgatgtacatatatgccagtatgttcatttagcacttcatct
     |   | |     |   |  |  |  | |   |   || | | | ||| ||| ||  |  | |   | |   | |  |    | ||||       ||    |      ||| |||    || | || || |   ||       ||| |||| | ||                                          
-----AATGCAATAAGTTCATTTCAACTAAGTGTTGGTTTAGCTGGAACAACTAACGAAACTGTCAA--ACTGCCAAAAAAATTTACCCTCAAAGCACCAGGGCCTGgttaaacttgtggccctgccaagattgtgaaaccaactaaatttattaccaaag-----------------------------------------

upper sequence: Vv17s0000g05070.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA17G08830.1 (Glycine max), 5'ss of exon 2
TTGAGAGCTCCAGGGCCTGGATATACTTGTGGGCCTGCCAAGATTGTAAAACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaactcactagtgcttttg---gccagttctacgacgttcccattcattagctaatgatgtacatatatgccagtatgttcatttagcacttcatct
 | | ||| ||||||||||| ||||| ||||| |||||||||||||| |||||||| || ||||  ||    ||  ||||||||  ||||||||| || |||||||||  |    | ||| ||     |  |  |  |  |  |  ||||   |      |   |   |  | |  ||  ||  |||     | |||  |   
CTCAAAGCACCAGGGCCTGGTTATACCTGTGGCCCTGCCAAGATTGTGAAACCAACTAAATTTATTACTAAAGACAAGAGGAGAACCACTCAGGCATTAAgtaagttacttgcaaaatgcattgacatgaaatgttgaatatatatccatgtttctttctaaacttagctgaaaaacctttagtttctagatgtactata---
















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|110365645|gb|EC928981.1|EC928981
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGA                         TGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
EST: gi|110709853|gb|EE085677.1|EE085677
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGA                         TGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
EST: gi|110398287|gb|EC964540.1|EC964540
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGA                         TGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
EST: gi|110711294|gb|EE087628.1|EE087628
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAAGCTTTGA                         TGACTTGGAATGTTACTTGCAC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCAC
EST: gi|110719674|gb|EE095008.1|EE095008
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAAGCTTTGA                         TGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
EST: gi|110693614|gb|EE069998.1|EE069998
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGA                         TGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
EST: gi|110709374|gb|EE084778.1|EE084778
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGA                         TGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
EST: gi|33407966|gb|CF213593.1|CF213593
EST:     ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGA                         TGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGC
EST: gi|110713068|gb|EE088664.1|EE088664
EST:     C-AACCAAGTTTACCACGGGCG-ATCAGAGGAGAGTCACTCAGGCTTTGA                         TGAACTGGGAAGGT-ACTTGGC-CGTAATCACATTTCCTGGCTC
genomic: CCAACCAAGTTTACCACGG-CGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGA-CTTGGAATGTTACTTG-CACGTATTCACAATTCCTGGCTC
EST: gi|110712428|gb|EE090037.1|EE090037
EST:     -CCAACCAAGTTTAC-ACGGCGGATCAGAGGAAAGTCACTCCGGCTTTGA                         TGACTTGGAATGGTACTTGCACGGAATCACATTTC-TGGCTC
genomic: ACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaac ... cctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGAGAGCTCCAGGGCCTGGATATACTTGTGGGCCTGCCAAGATTGTAAAACCAACCAAGTTTACCACGGCGGATCAGAGGAGAGTCACTCAGGCTTTGAgtaagttaactcactagtgcttttggccagttctacgacgttcccattcattagctaatgatgtacatatatgccagtatgttcatttagcacttcatct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA