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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaagaaaccatatttatagccatgcttcacatgtacattgctgaccatgcacagcatattctgccacaattacacttaatcattctctttttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTGAAGCAAAACCACCTACTAGTCCTTTAAGGAAGAGAGGAAA

Basic information

species Vitis vinifera
transcript Vv08s0007g07960.t01
intron # 6
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|30297265|gb|CB974059.1|CB974059
EST:     GCTGGATTCACCCCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTTTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|351015510|gb|FQ447339.1|FQ447339
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATAGCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|349825564|gb|FQ419481.1|FQ419481
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATAGCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|30297223|gb|CB974017.1|CB974017
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|352794289|gb|FQ479531.1|FQ479531
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|351028672|gb|FQ446345.1|FQ446345
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|351054628|gb|FQ456825.1|FQ456825
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAAAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|110686833|gb|EE063714.1|EE063714
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATAGCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|349827514|gb|FQ422382.1|FQ422382
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|110701183|gb|EE078491.1|EE078491
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATAGCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|351048863|gb|FQ431528.1|FQ431528
EST:     GCTGGATTCACACCGATTCAAGGATATCCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|351023284|gb|FQ432667.1|FQ432667
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG
EST: gi|351040488|gb|FQ434621.1|FQ434621
EST:     GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG                         GAGAGCTGAAGGCAACCAAAGTCCACCAGAAATGGGCAAAACAAGTGTCTG
genomic: GCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttc ... tttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgcacagcatattctgccacaattacacttaatcattctctttttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTGAAGCAAAACCACCTACTAGTCCTTTAAGGAAGAGAGGAAA
                             acttaat  putative branch site (score: 4)
                                   tcattctctttttcac  CT-rich tract
                               ttaatcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaagaaaccatatttatagccatgcttcacatgtacattgctgaccatgcacagcatattctgccacaattacacttaatcattctctttttcacatagGAGAGCTGAAGGCAACCAAAGTCTACCAGAAATGGGCAAAACAAGTGTCTGAAGCAAAACCACCTACTAGTCCTTTAAGGAAGAGAGGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - -aaaccat
- - - - - - - - - - ccatgct
- - - - - - - - - - - - - -tcacatg
- - - - - - - - - - - - - - - - - - cattgct
- - - - - - - - - - - - - - - - - - - - - - -ccatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccacaa