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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGCGCCGTTTAATGGAAAAGATTCCTGAAATCGTAGCTGTGGAACCAATAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattcatctcatgtggtttatccattgtttttgtttcaaatattgcaggttttagatcccctggctgtttgcacctcgcttttctttagtaaaaa...

Basic information

species Vitis vinifera
transcript Vv12s0035g00770.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g00770.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA12G28900.2 (Glycine max), 5'ss of exon 3
TGAGCGCCGTTTAATGGAAAAGATTCCTGAAATCGTAGCTGTGGAACCAATAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattcatctcatgtggtttatccatt-gtttttgtttcaaatattgca-ggttttagatcccctggctgtttgcacctcgcttt-tctttagtaaaaa
|||||| || |||||||| ||||| |||||||| || || || |||||||| || |||||||||||||| |||||||| |||||||| || ||||||||||| | | ||  |||    |  || ||      |  | |  |  |   ||||   ||  |||  |   |     |  || |       |  | |||| | |   
TGAGCGTCGGTTAATGGAGAAGATCCCTGAAATTGTGGCAGTTGAACCAATTGCTGATGAAGAAACTGGTCTTGAGCTCAATGAAGATAATATAGAGAAGgttact-tttgtctttcattattaatatgcaagcatatagtatagtgattgagtggacttaattgaacaaataggatgaaaaagatataatttttaattat--

upper sequence: Vv12s0035g00770.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G49940.1 (Arabidopsis thaliana), 5'ss of exon 3
TGAGCGCCGTTTAATGGAAAAGATTCCTGAAATCGTAGCTGTGGAACCAATAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgt-aattattcatctcatgtggtttatccattgtttttgtttcaaatattgcaggttttagatcccctggctgtttgcacctcgc-ttttctttagtaaaaa
|||||| ||| ||||||||||||| |||||||| || ||||| ||| |  |  |||||||||| ||||||||||| |||||||| |||||||| || ||||| || | ||  | | | |   | |     ||   ||  || || || | |     ||   ||| | |      | |         | || |||||      
TGAGCGTCGTCTAATGGAAAAGATCCCTGAAATAGTGGCTGTAGAAGCTCTTCCAGATGAAGAGACTGGCCTTGAACTGAATGAGGAAAACATTGAAAAGgttaaattttggtatta-gctctatgctgcttaagttctttgcatatgtgggtttgttctaatcacttactcaatggtgtgcaatatattgtttag------

upper sequence: Vv12s0035g00770.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G49940.2 (Arabidopsis thaliana), 5'ss of exon 3
TGAGCGCCGTTTAATGGAAAAGATTCCTGAAATCGTAGCTGTGGAACCAATAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgt-aattattcatctcatgtggtttatccattgtttttgtttcaaatattgcaggttttagatcccctggctgtttgcacctcgctt-ttctttagtaaaaa
           ||||||||||||| |||||||| || ||||| ||| |  |  |||||||||| ||||||||||| |||||||| |||||||| || ||||| || | ||  | | | |   | |     ||   ||  || || || | |     ||   ||| | |      | |         | || |||||      
-----------TAATGGAAAAGATCCCTGAAATAGTGGCTGTAGAAGCTCTTCCAGATGAAGAGACTGGCCTTGAACTGAATGAGGAAAACATTGAAAAGGTTAAATTTTGgtatta-gctctatgctgcttaagttctttgcatatgtgggtttgttctaatcacttactcaatggtgtgcaatatattgtttag------

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|349812244|gb|FQ411839.1|FQ411839
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|349816925|gb|FQ405051.1|FQ405051
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|351033002|gb|FQ461891.1|FQ461891
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|351015380|gb|FQ447209.1|FQ447209
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|351019291|gb|FQ429451.1|FQ429451
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|110383835|gb|EC948236.1|EC948236
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|349816960|gb|FQ405086.1|FQ405086
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|110380986|gb|EC946293.1|EC946293
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|349814109|gb|FQ414343.1|FQ414343
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAATGCCAT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCAT
EST: gi|37190110|gb|CF609459.1|CF609459
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|351015690|gb|FQ427175.1|FQ427175
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAAGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|110369819|gb|EC933988.1|EC933988
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|110708505|gb|EE086122.1|EE086122
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|349822331|gb|FQ412595.1|FQ412595
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|110390777|gb|EC955704.1|EC955704
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|349828646|gb|FQ418381.1|FQ418381
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|351026904|gb|FQ436557.1|FQ436557
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCTATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|351032469|gb|FQ458834.1|FQ458834
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|349823025|gb|FQ400004.1|FQ400004
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTCGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|349823598|gb|FQ415008.1|FQ415008
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGATGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|33407802|gb|CF213429.1|CF213429
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|110713850|gb|EE090132.1|EE090132
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|110407299|gb|EC972896.1|EC972896
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
EST: gi|351017333|gb|FQ435685.1|FQ435685
EST:     TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAG                         GTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT
genomic: TAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattc ... accatttcagGTGCTTGAGGAAATAAGGCCATACCTTGTTGGGGCAGCAGGTGGATCTCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGCGCCGTTTAATGGAAAAGATTCCTGAAATCGTAGCTGTGGAACCAATAGCAGATGAAGAAACTGGCCTTGAGCTGAATGAAGAAAACATAGAGAAGgtaattattcatctcatgtggtttatccattgtttttgtttcaaatattgcaggttttagatcccctggctgtttgcacctcgcttttctttagtaaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtaaaa