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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttaggttattgatatcattggtttcattgaaaatgttaaaaaaaatggtattggagccggcatcatctcatatcaatatttccgtgtttactgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAAGTGGTGGCGAATCTCCCAGTTATTACTCTTACAGAAGACGCCTTATCAA

Basic information

species Vitis vinifera
transcript Vv04s0008g02290.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g02290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G33630.1 (Glycine max), 3'ss of exon 3
----gttaggttattgat-atcattggtttcattgaaaatgttaaaaaaaatggtattggagccggcatcatctcatatcaatatttccgtgtttactgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAAGTGGTGGCGAATCTCCCAGTTATTACTCTTACAGAAGACGCCTTATCAA
      ||  || |  || || |   |   ||||  |  ||||| |          ||    |  |    | ||    | ||| |||   | |||  || ||| |||  ||||    | | ||  |||||||| || ||| |||||||||||||| || ||||| ||||| || || |||||||| ||||| ||   | |  | |
gatatatattttgtctattatgagcagagccattccat-tgttacactttgcacggttcactcaagggaga-cttgctttaattttt--attttttttggtta-gATGGTGGATGGAGGTCCTGTAGCCCCAAAAGCACCTCCTGCCAGTAAAGAGGTTGTGGCAAATCTTCCGGTCATTACTCTCACAGAGGAAATCCTGGCTA
















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|110713662|gb|EE089777.1|EE089777
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|22009632|gb|BQ794666.1|BQ794666
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|161713609|gb|FC063419.1|FC063419
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110359196|gb|EC920296.1|EC920296
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110720159|gb|EE095835.1|EE095835
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAAGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCCGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110719678|gb|EE095026.1|EE095026
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110723887|gb|EE099235.1|EE099235
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACNATGATACTANAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|351027748|gb|FQ446915.1|FQ446915
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110712068|gb|EE089269.1|EE089269
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|22009633|gb|BQ794667.1|BQ794667
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|33402318|gb|CF207945.1|CF207945
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110713425|gb|EE089336.1|EE089336
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110720612|gb|EE096687.1|EE096687
EST:     TAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCCTGAG                         ATC-TGGACNATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGA
genomic: TAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCC-TGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGA
EST: gi|110710869|gb|EE087414.1|EE087414
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|349830496|gb|FQ416794.1|FQ416794
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110409640|gb|EC975307.1|EC975307
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|33402240|gb|CF207867.1|CF207867
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|349823913|gb|FQ415324.1|FQ415324
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110713275|gb|EE089053.1|EE089053
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTANAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|22008390|gb|BQ793424.1|BQ793424
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110375238|gb|EC940205.1|EC940205
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|30302702|gb|CB979496.1|CB979496
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110699234|gb|EE076052.1|EE076052
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|22008718|gb|BQ793752.1|BQ793752
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCTCCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|349825321|gb|FQ418053.1|FQ418053
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110718678|gb|EE095783.1|EE095783
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACNATGATACTAGAGCCCCAAGAGTNAC-ACCTGCCAGTAAAGA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGT-ACCACCTGCCAGTAAAGA
EST: gi|22009328|gb|BQ794362.1|BQ794362
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|22009660|gb|BQ794694.1|BQ794694
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|349823912|gb|FQ415323.1|FQ415323
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110398241|gb|EC964460.1|EC964460
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|352794437|gb|FQ481668.1|FQ481668
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|351037479|gb|FQ460678.1|FQ460678
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|352763367|gb|FQ471679.1|FQ471679
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGATAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|351038146|gb|FQ465263.1|FQ465263
EST:     CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: CTAGTATACTTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
EST: gi|110429507|gb|EC996001.1|EC996001
EST:     TTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAG                         ATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA
genomic: TTTTGCAGCTGATGGATGACCTTCAGGATATTGTGCCTGAGgtactgctaa ... actgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtattggagccggcatcatctcatatcaatatttccgtgtttactgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAAGTGGTGGCGAATCTCCCAGTTATTACTCTTACAGAAGACGCCTTATCAA
                       tcatatcaatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaggttattgatatcattggtttcattgaaaatgttaaaaaaaatggtattggagccggcatcatctcatatcaatatttccgtgtttactgtttaagATCCTGGACAATGATACTAGAGCCCCAAGAGTACCACCTGCCAGTAAAGAAGTGGTGGCGAATCTCCCAGTTATTACTCTTACAGAAGACGCCTTATCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - -gaaaatg
- - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gccggca