Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGCTCAGCTTGATACATCAAGAGCATCTATATCTGGTCATTCTATGGGCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagcatcatatttcctctctgcatttcaaagttctaaattttgataaaattgtagaaggcctgaaacttaatcaacttctgaacttttaatatt...

Basic information

species Vitis vinifera
transcript Vv08s0007g09010.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g09010.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA02G33350.1 (Glycine max), 5'ss of exon 4
TTTTGCTCAGCTTGATACATCAAGAGCATCTATATCTGGTCATTCTATGGGCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcc---taagcatc---atatttcctctctgcatt-tcaaagttctaaattttgataaaattgtagaaggcctgaaacttaatcaacttctgaacttttaatatt
|||| | |||||||| | ||||| ||| ||||||| ||||||||||||||| |||||||| ||||| ||||||| ||||||||||| ||| || |||||||||     ||  || |   | || |  | |    ||  ||||||   ||   ||||  ||  |||   |   ||| || | | ||  |    |  ||| || |    
TTTTCCACAGCTTGAAATATCAAAAGCTTCTATATTTGGTCATTCTATGGGTGGGCATGGTGCTCTAACAATCTTCCTGAAAAATCAGGATAAATATAAGgtgttgattacacaactgaaaatctggttttaatatagtcaaagaatta--ctttggaaactttggcaatttcct-aagcattatggatggttttactgttga----

upper sequence: Vv08s0007g09010.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G15910.1 (Glycine max), 5'ss of exon 4
TTTTGCTCAGCTTGATACATCAAGAGCATCTATATCTGGTCATTCTATGGGCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagcatcatatttcctctctgcatttcaaagttctaaattttgataaaattgtagaaggcct----gaaacttaatcaacttctgaacttttaatatt------
|||| | || ||||| |||||||  || ||||||| ||||||||||||||| |||||||| ||||| ||||||||||| ||||||| ||| || |||||||||    ||  |   ||| |      |||  | |||  |     |||| ||| | |  |||||   ||     ||| ||    |  | |||||| ||    ||       
TTTTCCACACCTTGAAACATCAAAGGCTTCTATATTTGGTCATTCTATGGGTGGGCATGGTGCTCTAACAATCTACCTAAAAAATCAGGATAAATATAAGgtgt---agtgttg-attac------gcaactgaaatcttctggttttaatatagtcatagaattactttgaaaaatttggcaatttcctgaacattatggatagtttta

upper sequence: Vv08s0007g09010.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT2G41530.1 (Arabidopsis thaliana), 5'ss of exon 4
TTTTGCTCAGCTTGATACATCAAGAGCATCTATATCTGGTCATTCTATGGGCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaag-catcatatttcctctctgcatttcaaagtt--ctaaattttgataaaattgtaga--aggcctgaaacttaatcaacttctgaacttt-taatatt-----------------------------------------------------------------------
 ||| | |||||||| ||| ||| ||||||||||||||| || || ||||| || ||||||||||| || || |||||||  || || || || || |||||    |   ||     ||| ||    ||| | ||| ||    || ||  |   ||  | | |    |   || ||  |  ||   |||      |   |||| |                                                                        
CTTTTCCCAGCTTGACACAACAAAAGCATCTATATCTGGACACTCCATGGGTGGACATGGAGCTCTTACTATATACCTGAGGAACCTCGATAAATACAAGgtattcatttcaaagagttttcttgtggcaatgcaatgtgagttagatgcttgaaacgtggaatctcaaatctaaagatagattgtctttcatggtggataatgtgcttgaaccaaatacttgttactcctatatcattcttttaatttaaccacttcatctgtgtaacatgttcag

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|77581907|gb|DV219914.1|DV219914
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110687388|gb|EE064765.1|EE064765
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|34550413|gb|CF518631.1|CF518631
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|34550493|gb|CF518711.1|CF518711
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110719520|gb|EE094721.1|EE094721
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110720771|gb|EE096986.1|EE096986
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|30303302|gb|CB980096.1|CB980096
EST:     GCGGGCATGGAGCTCTGTCAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|349825963|gb|FQ415768.1|FQ415768
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|294966328|gb|GW837579.1|GW837579
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTAT-AACTGTCC-TGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110367745|gb|EC931696.1|EC931696
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110713210|gb|EE088932.1|EE088932
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110685290|gb|EE063541.1|EE063541
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|351015480|gb|FQ447309.1|FQ447309
EST:     G-GGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|46918518|gb|CN547847.1|CN547847
EST:     ACAAGTATGAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: ACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110403744|gb|EC969476.1|EC969476
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110707831|gb|EE084680.1|EE084680
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAATGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110720121|gb|EE095776.1|EE095776
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|351013248|gb|FQ424953.1|FQ424953
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110384036|gb|EC948449.1|EC948449
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|30303234|gb|CB980028.1|CB980028
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110416702|gb|EC982699.1|EC982699
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|30129940|gb|CB915279.1|CB915279
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|26263619|gb|CA814682.1|CA814682
EST:     CAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: CAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|110402055|gb|EC968688.1|EC968688
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|161715442|gb|FC069433.1|FC069433
EST:     -CGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCT
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCT
EST: gi|352794409|gb|FQ481640.1|FQ481640
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|351040136|gb|FQ425222.1|FQ425222
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|37190457|gb|CF609806.1|CF609806
EST:     GCGGTCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACTAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|351027863|gb|FQ448433.1|FQ448433
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|34319644|gb|CF372398.1|CF372398
EST:     CGGGCATGGAGCTCTGACAATCTACCTG-AAAATCCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: CGGGCATGGAGCTCTGACAATCTACCTGAAAAAT-CTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|161718850|gb|FC066651.1|FC066651
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|349824260|gb|FQ417647.1|FQ417647
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
EST: gi|161717616|gb|FC065629.1|FC065629
EST:     GCGGGCATGGAGCTCTGACAATCTACCTGACAAATCTGGACAAGTATAAG                         TCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC
genomic: GCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagc ... catttttcagTCAGTGTCAGCATTTGCACCAATTGTGAATCCTATGAACTGTCCCTGGGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTGCTCAGCTTGATACATCAAGAGCATCTATATCTGGTCATTCTATGGGCGGGCATGGAGCTCTGACAATCTACCTGAAAAATCTGGACAAGTATAAGgtgcctaagcatcatatttcctctctgcatttcaaagttctaaattttgataaaattgtagaaggcctgaaacttaatcaacttctgaacttttaatatt

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtagaagg