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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtggagaaaaatactaaatttgtataccatggtgtgattcttaatggtcaatcatgcattcagtagtcattgtaacattattaatgtttcttaatgttgatttcctaaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATTGGCACTCCTGCTGCAGTTATGATTTTTGGAAGTTATGCTGAATTTATGA

Basic information

species Vitis vinifera
transcript Vv03s0063g00610.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|32269284|gb|CD718443.1|CD718443
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|30324434|gb|CD007696.1|CD007696
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|30325540|gb|CD008802.1|CD008802
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|30323833|gb|CD007095.1|CD007095
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|30324659|gb|CD007921.1|CD007921
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|32268767|gb|CD717926.1|CD717926
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|71861362|gb|DT010417.1|DT010417
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCCGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|30323535|gb|CD006797.1|CD006797
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|30325285|gb|CD008547.1|CD008547
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|30324785|gb|CD008047.1|CD008047
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|32248693|gb|CD714512.1|CD714512
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
EST: gi|32248870|gb|CD714689.1|CD714689
EST:     GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAG                         GCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT
genomic: GAAATGACAAAGACCTTGGCTCGCGTCTTCCATTTGATGCTGGTTTTGAGgtagtggaga ... taaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtagtcattgtaacattattaatgtttcttaatgttgatttcctaaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATTGGCACTCCTGCTGCAGTTATGATTTTTGGAAGTTATGCTGAATTTATGA
                                          tcctaaa  putative branch site (score: 2)
                                        tttcct  CT-rich tract
        attgtaacattattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtggagaaaaatactaaatttgtataccatggtgtgattcttaatggtcaatcatgcattcagtagtcattgtaacattattaatgtttcttaatgttgatttcctaaattgcagGCTGTGGGAATAATTGCTGCTGTGGGTGATTCTGTCAATGATTTGAAAATTGGCACTCCTGCTGCAGTTATGATTTTTGGAAGTTATGCTGAATTTATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG