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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttttgagtccatgtctcaagatctcttcatgagagtttttggtttttacttcatgcaatatgtaacctgcatttttttctcttcctgtgtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT

Basic information

species Vitis vinifera
transcript Vv11s0016g03200.t01
intron # 8
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|32459007|gb|CD800181.1|CD800181
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAG                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|110727031|gb|EE103356.1|EE103356
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|45771236|gb|CN007088.1|CN007088
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|83275538|gb|DV939546.1|DV939546
EST:     ATAGTGAATCTCGGTGATATGCTGGAGCGCTGGAGCACCTGTATTTTCAA                         GTCCACATTGCACCGGGTTGTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|110428851|gb|EC995334.1|EC995334
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|83276122|gb|DV940130.1|DV940130
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTTTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|110390246|gb|EC955146.1|EC955146
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|30253347|gb|CB970898.1|CB970898
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTTTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|71887181|gb|DT036236.1|DT036236
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|77589174|gb|DV223847.1|DV223847
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|83275983|gb|DV939991.1|DV939991
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|71884795|gb|DT033850.1|DT033850
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|30253270|gb|CB970821.1|CB970821
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|110421097|gb|EC987385.1|EC987385
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
EST: gi|71884047|gb|DT033102.1|DT033102
EST:     ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAA                         GTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
genomic: ATAGTGAATCTTGGTGATATGCTGGAGCGCTGGAGCAACTGTATTTTCAAgtaatgtgca ... gtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttacttcatgcaatatgtaacctgcatttttttctcttcctgtgtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT
                atgtaac  putative branch site (score: 3)
                          catttttttctcttcc  putative PPT
                           atttttttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttttgagtccatgtctcaagatctcttcatgagagtttttggtttttacttcatgcaatatgtaacctgcatttttttctcttcctgtgtgtatccagGTCCACATTGCACCGGGTTCTAGTGCATGGTCCAGAGAGATATTCT

- - - - - ccatgtc
- - - - - - - - - - - - - - -catgaga
- - - - - - - - - - - - - - - - - - - - - - - - - - tcatgca