Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCATATTGCCTTCTGCATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttctttgatatgtttctgtccaagaggatttaacgtaagtctctcacataagttttccattcattaattctttattgagaagataacaacata...

Basic information

species Vitis vinifera
transcript Vv12s0059g01930.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g01930.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA12G32860.1 (Glycine max), 5'ss of exon 8
CTTCATATTGCCTTCTGCATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttctttgata--tgtttctgtccaagaggatttaacgtaagtctctcacataagttttccattcattaattctttattgagaagataacaacata---
 | || |||  ||| ||  | |||||| || |||||||||||||||| ||||| ||||| |||||||||| ||||   ||| | |  ||  |   |   | |   | | |       ||   | |  ||| | |  |  | | | ||  | |  || || |  |    |    
GTGCACATTCTCTTTTGTGTTTTTGCTACAATTGCTCCTCCAATTGTCTTCAAAGGGAAATCTCTCACgtgagttcctttttaaaactgcgttccttttatatattctgatacctaact---ataggagtatacagtatacttactcggtgt--agtagttttcttttttctt
















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|110418607|gb|EC984768.1|EC984768
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|77584192|gb|DV221151.1|DV221151
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|110385536|gb|EC950069.1|EC950069
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|110388736|gb|EC953515.1|EC953515
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|110376126|gb|EC941168.1|EC941168
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|110357026|gb|EC920280.1|EC920280
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAAATC-TGCCTG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAA-TCCTGCCTG
EST: gi|32245954|gb|CD711773.1|CD711773
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|71870414|gb|DT019469.1|DT019469
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|110423904|gb|EC990257.1|EC990257
EST:     GCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: GCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|71870410|gb|DT019465.1|DT019465
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|110422592|gb|EC988919.1|EC988919
EST:     GCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: GCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
EST: gi|37190516|gb|CF609865.1|CF609865
EST:     ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCAC                         AGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG
genomic: ATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttc ... tgtggcacagAGGAATCCTGCCTGCAGTGGATCTTTTGAGTAAACATGCTTTAGTTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCATATTGCCTTCTGCATCTTTGCTTCAGTTGCTCCTCCAATTGTATTCAAGGGGAAGTCTCTCACgtaagttttctttgatatgtttctgtccaagaggatttaacgtaagtctctcacataagttttccattcattaattctttattgagaagataacaacata

- - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagataa