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

...gaattttttcttagtgcaggaatttgaaatggatttaccattttgattctaggttataaagtgaaactaactaattttcaagagttttcctctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCAGGAAAGTTGGAGATGTTGTTGCTTATGCTGGTACCCCAATGGGCTCATA

Basic information

species Vitis vinifera
transcript Vv09s0002g08480.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g08480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G36990.1 (Glycine max), 3'ss of exon 2
gaattttttcttagtgcaggaatttgaaatggatttaccattttgattctaggtta-----taaagtgaaactaactaa--ttttcaagagttttcctctg--ttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCAGGAAAGTTGGAGATGTTGTTGCTTATGCTGGTACCCCAATGGGCTCATA
         |  |||| |  | ||     ||  ||| |||  | ||   || ||        || ||  ||    || |  | ||      ||||  | ||  | ||||||||||| |||||||| || ||||||||||||||  ||||  | || || ||| | ||||||||| |||| |||||||| |||   |||||||| |||||
---------cacagtggaaaatttgattttgtgttttccaaatggacagtaagtcgaatcccaatgtagaatgtgctgaattctttgccccttttaatatggctggcagGTATGGAAGCTGTTGGGGTTGTGACAGCTGTGGGTGCTGGACTCACTGGTAGGCAGGTTGGAGATCTTGTAGCTTATGCAGGTCAACCAATGGGTTCATA
















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|351045807|gb|FQ440992.1|FQ440992
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351032149|gb|FQ460406.1|FQ460406
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351035816|gb|FQ463661.1|FQ463661
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351054048|gb|FQ441814.1|FQ441814
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351053731|gb|FQ441497.1|FQ441497
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351047232|gb|FQ454843.1|FQ454843
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351035068|gb|FQ458425.1|FQ458425
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351057094|gb|FQ450801.1|FQ450801
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351032442|gb|FQ458807.1|FQ458807
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351035596|gb|FQ463441.1|FQ463441
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGTCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351055356|gb|FQ441954.1|FQ441954
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351046818|gb|FQ454428.1|FQ454428
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGCGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351035928|gb|FQ463773.1|FQ463773
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351046011|gb|FQ441394.1|FQ441394
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCGTTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351042210|gb|FQ442677.1|FQ442677
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351038021|gb|FQ460763.1|FQ460763
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351035096|gb|FQ458453.1|FQ458453
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351031928|gb|FQ460185.1|FQ460185
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351042201|gb|FQ442668.1|FQ442668
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCCGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|349808218|gb|FQ403405.1|FQ403405
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351044422|gb|FQ442953.1|FQ442953
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351034896|gb|FQ458253.1|FQ458253
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|110699271|gb|EE076123.1|EE076123
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|352789828|gb|FQ478643.1|FQ478643
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351053674|gb|FQ440183.1|FQ440183
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|352798966|gb|FQ480815.1|FQ480815
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|349828369|gb|FQ416322.1|FQ416322
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|33403792|gb|CF209419.1|CF209419
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|349812535|gb|FQ407154.1|FQ407154
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|349832934|gb|FQ423056.1|FQ423056
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|110724513|gb|EE100407.1|EE100407
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|349824576|gb|FQ413243.1|FQ413243
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|349819399|gb|FQ412293.1|FQ412293
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
EST: gi|351032220|gb|FQ460477.1|FQ460477
EST:     CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCCAG                         GTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA
genomic: CTACTTCCGCAAAGGAGTTTATAAGGCCACTACAATGCCATTTACCCTAGgtttgtttta ... tctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctaggttataaagtgaaactaactaattttcaagagttttcctctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCAGGAAAGTTGGAGATGTTGTTGCTTATGCTGGTACCCCAATGGGCTCATA
                                       ttttcctctgttgc  CT-rich tract
                  aaactaactaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaattttttcttagtgcaggaatttgaaatggatttaccattttgattctaggttataaagtgaaactaactaattttcaagagttttcctctgttgcagGTATGGAGGCTGTTGGAGTGGTGACAGCTGTGGGCCCTGGTATAACAGGCAGGAAAGTTGGAGATGTTGTTGCTTATGCTGGTACCCCAATGGGCTCATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - -gcaggaa
- - - - - - - - - - - - - aaatgga
- - - - - - - - - - - - - - - - - - -ccatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaactaa