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

gtaaatgtttttcaatcagtaaatatatctcctaatctcattcatggtgctaagcagttgtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAGTAGTATCTCTGTGGCTGGAGGTGAGGACACAAGTTCCAATGAGCAATTG

Basic information

species Vitis vinifera
transcript Vv06s0004g03000.t01
intron # 6
splice site 3'
intron type U2

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|352794338|gb|FQ481569.1|FQ481569
EST:     AACTTGCTAGGGACTGCTTTCCATCCTGAATTGACTGCAGATACTCGATG                         GCACAGTTACTTTCTTGA-GATGACGAGTGAGGTC
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTT-CTTGAAGATGACGAGTGAGGTC
EST: gi|122689472|gb|EC939909.1|EC939909
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
EST: gi|351032258|gb|FQ460515.1|FQ460515
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGA
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGA
EST: gi|122689691|gb|EC942857.1|EC942857
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
EST: gi|351039369|gb|FQ461236.1|FQ461236
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAG
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAG
EST: gi|122690972|gb|EC965184.1|EC965184
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
EST: gi|349824064|gb|FQ417451.1|FQ417451
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGAC
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGAC
EST: gi|349815212|gb|FQ400367.1|FQ400367
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTTCTTCTTGAAGATGACCAGTGAGGTCGGAGAAGA
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGA
EST: gi|351046692|gb|FQ453308.1|FQ453308
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGA
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGA
EST: gi|351041568|gb|FQ455784.1|FQ455784
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGT
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGT
EST: gi|351037793|gb|FQ464234.1|FQ464234
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAAAAGAGGCCTCAAG
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
EST: gi|349828753|gb|FQ418488.1|FQ418488
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGG
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGG
EST: gi|351033877|gb|FQ462286.1|FQ462286
EST:     AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATG                         GCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG
genomic: AACTTGCTAGGGACTGCCTTCCATCCTGAATTGACTGCAGATACCCGATGgtaaatgttt ... gtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcagtaaatatatctcctaatctcattcatggtgctaagcagttgtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAGTAGTATCTCTGTGGCTGGAGGTGAGGACACAAGTTCCAATGAGCAATTG
               tcctaat  putative branch site (score: 2)
     taaatatatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatgtttttcaatcagtaaatatatctcctaatctcattcatggtgctaagcagttgtctgtgcagGCACAGTTACTTCTTGAAGATGACGAGTGAGGTCGGAGAAGAGGCCTCAAGTAGTATCTCTGTGGCTGGAGGTGAGGACACAAGTTCCAATGAGCAATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG