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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagctacattagctatatgactttgcttttaatgaatttggatttgataatactctttgcatcttctcacggttgtccacctaacatatcttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCGGCATGGCTGTGGGTTACCTTTGTACATTTGACAAATTGTTGGGTGACAT

Basic information

species Vitis vinifera
transcript Vv01s0026g01700.t01
intron # 12
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|110418753|gb|EC984927.1|EC984927
EST:     GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAG                         GACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
genomic: GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAGgtttgaatga ... ttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
EST: gi|110379389|gb|EC944580.1|EC944580
EST:     GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAG                         GACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
genomic: GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAGgtttgaatga ... ttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
EST: gi|46910317|gb|CN545692.1|CN545692
EST:     GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAG                         GACTTTTTCTGTGAAGTGTTGAATATAGCATT
genomic: GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAGgtttgaatga ... ttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATT
EST: gi|110396076|gb|EC961751.1|EC961751
EST:     GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAG                         GACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
genomic: GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAGgtttgaatga ... ttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
EST: gi|110361687|gb|EC925180.1|EC925180
EST:     GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAG                         GACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
genomic: GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAGgtttgaatga ... ttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
EST: gi|22011799|gb|BQ796833.1|BQ796833
EST:     GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAG                         GACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
genomic: GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAGgtttgaatga ... ttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
EST: gi|46918277|gb|CN547606.1|CN547606
EST:     GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAG                         GACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG
genomic: GTGCAAGATGGTGTTGATAAATTGGATGATCAGCCAAGGAGCCTGACAAGgtttgaatga ... ttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataatactctttgcatcttctcacggttgtccacctaacatatcttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCGGCATGGCTGTGGGTTACCTTTGTACATTTGACAAATTGTTGGGTGACAT
                                 acctaac  putative branch site (score: 2)
                                         tatctttttt  CT-rich tract
                                    taacatatctttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagctacattagctatatgactttgcttttaatgaatttggatttgataatactctttgcatcttctcacggttgtccacctaacatatcttttttgcagGACTTTTTCTGTGAAGTGTTGAATATAGCATTACTAAATAAGAGCACCTCGGCATGGCTGTGGGTTACCTTTGTACATTTGACAAATTGTTGGGTGACAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaccta