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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattcaatttgtgatctatgtaacttataacggaaatttttttagggggtgggggagggagaggggcttgttctttcataaagatctgatgtttttcccctccgcaaataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTGGTTATGTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTC

Basic information

species Vitis vinifera
transcript Vv06s0004g00060.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|32269728|gb|CD718887.1|CD718887
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|71878566|gb|DT027621.1|DT027621
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|45771052|gb|CN006904.1|CN006904
EST:     AAAAAC-TGCAGACC-GCACTCA-TCCAT                         GA-TATCTGG-TTCAA-GAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: AAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|56409217|gb|CX017469.1|CX017469
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|110688296|gb|EE066688.1|EE066688
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|110711311|gb|EE087659.1|EE087659
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAAGAAGAAAATGANGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|110702984|gb|EE079435.1|EE079435
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|110713034|gb|EE088602.1|EE088602
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAAGAAAATGANGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|27586580|gb|CB009275.1|CB009275
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|110692596|gb|EE072018.1|EE072018
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|161716048|gb|FC069121.1|FC069121
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTT
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTT
EST: gi|110402787|gb|EC963454.1|EC963454
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|294966527|gb|GW837662.1|GW837662
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|71879747|gb|DT028802.1|DT028802
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|110693463|gb|EE069714.1|EE069714
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGANGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|32269126|gb|CD718285.1|CD718285
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG
EST: gi|110688262|gb|EE066614.1|EE066614
EST:     CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCAT                         GATTATCTGGTTTCAAGGAAGAAAATGAGGCCAGTGGGTCCCACAGATTTG
genomic: CTGTAGAGGGTGGAAATTTTAAAAAACTTGCAGACCTGCACTCAGTCCATgtaaattcaa ... aataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggggcttgttctttcataaagatctgatgtttttcccctccgcaaataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTGGTTATGTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTC
                      atctgat  putative branch site (score: 4)
                                            aaataataca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattcaatttgtgatctatgtaacttataacggaaatttttttagggggtgggggagggagaggggcttgttctttcataaagatctgatgtttttcccctccgcaaataatacagGATTATCTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTGGTTATGTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC