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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcacaatttgatgctgggacattgaacattgaaggtcttcgttgattttttttttaatctgcacttgcttcttgcgatgttcattatcttattactgaattccatttctttgttttaacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAGCATTCAGTAACCATTGAG

Basic information

species Vitis vinifera
transcript Vv05s0094g01110.t01
intron # 3
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|30326336|gb|CD009598.1|CD009598
EST:     GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAG                         ATCATGTGGTTAGTGAACATTTTCAGAGCGNAAATTGTGGATATCTCAGAG
genomic: GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAGgtaatcacaa ... taacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
EST: gi|294964421|gb|GW838224.1|GW838224
EST:     GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAG                         ATCATGTGGTTAGTGAACATTTACAGAGCGAAAATTGTGGATAT-TCAGAG
genomic: GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAGgtaatcacaa ... taacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
EST: gi|37185402|gb|CF604755.1|CF604755
EST:     GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAG                         ATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
genomic: GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAGgtaatcacaa ... taacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
EST: gi|32247510|gb|CD713329.1|CD713329
EST:     GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAG                         ATCATGTGGTTAGTGAACATTTTCAGAGCGAAA-TTGTGGATATCTCAGAG
genomic: GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAGgtaatcacaa ... taacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
EST: gi|352772784|gb|FQ473822.1|FQ473822
EST:     GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAG                         ATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
genomic: GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAGgtaatcacaa ... taacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
EST: gi|110708435|gb|EE085972.1|EE085972
EST:     GTGAACTCATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAG                         ATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
genomic: GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAGgtaatcacaa ... taacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
EST: gi|110723613|gb|EE101123.1|EE101123
EST:     GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAG                         ATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG
genomic: GTGAACTGATGCTCATAAAAGTCAATGCGAATCCCCAGTATCGTGCTGAGgtaatcacaa ... taacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgcgatgttcattatcttattactgaattccatttctttgttttaacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAGCATTCAGTAACCATTGAG
                                          ttttaac  putative branch site (score: 2)
                             ttccatttctttgttt  CT-rich tract
         ttcattatcttatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatcacaatttgatgctgggacattgaacattgaaggtcttcgttgattttttttttaatctgcacttgcttcttgcgatgttcattatcttattactgaattccatttctttgttttaacctccagATCATGTGGTTAGTGAACATTTTCAGAGCGAAAATTGTGGATATCTCAGAGCATTCAGTAACCATTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA