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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attctatttctgtgacactaataggagaattcaactattggaacgagttattaatcctggttgttcatcttaagtgattaaaatgttcttgctatttcagGAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACCTCAATATCACCACCAGCTGCACAACAGATTATATCTTCCATCAAGGTTA

Basic information

species Vitis vinifera
transcript Vv17s0000g00500.t01
intron # 9
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|71872282|gb|DT021337.1|DT021337
EST:     CTTTCACAAAATCTTTTGGATCATGTGGTGGTTATATTGCTGGATCTAAG                         GAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC
genomic: CTTTCACAAAATCTTTTGGATCATGTGGTGGTTATATTGCTGGATCCAAGgtttgtttgt ... gctatttcagGAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC
EST: gi|71866164|gb|DT015219.1|DT015219
EST:     CTTTCACAAAATCTTTTGGATCATGTGGTGGTTATATTGCTGGATCTAAG                         GAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC
genomic: CTTTCACAAAATCTTTTGGATCATGTGGTGGTTATATTGCTGGATCCAAGgtttgtttgt ... gctatttcagGAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC
EST: gi|110360549|gb|EC923744.1|EC923744
EST:     CATGTGGTGGTTATATTGCTGGATCCAAG                         GAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC
genomic: CATGTGGTGGTTATATTGCTGGATCCAAGgtttgtttgt ... gctatttcagGAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC
EST: gi|34542640|gb|CF510872.1|CF510872
EST:     CTTTCACAAAATCTTTTGGATCATGTGGTGGTTATATTGCAGGATCTAAG                         GAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC
genomic: CTTTCACAAAATCTTTTGGATCATGTGGTGGTTATATTGCTGGATCCAAGgtttgtttgt ... gctatttcagGAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttattaatcctggttgttcatcttaagtgattaaaatgttcttgctatttcagGAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACCTCAATATCACCACCAGCTGCACAACAGATTATATCTTCCATCAAGGTTA
   tattaat  putative branch site (score: 2)
                                        ttcttgct  putative PPT
                        ttaagtgattaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attctatttctgtgacactaataggagaattcaactattggaacgagttattaatcctggttgttcatcttaagtgattaaaatgttcttgctatttcagGAGCTGATTCAATATCTAAAGTACACTTGTCCTGCTCATCTATATGCAACCTCAATATCACCACCAGCTGCACAACAGATTATATCTTCCATCAAGGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - aggagaa
- - - - - - - - - - - - - - - - - ctattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cctggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attaaaa