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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaccttgtattattgtgttaactaatgtttcaaacttcaaattgtgcttcaaggattatctaattgctatatcatatgtattgatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTAAGAACTGGAGCTGCTGCAATGAAGGCAATGCAAAAAGCAAC

Basic information

species Vitis vinifera
transcript Vv11s0016g02720.t01
intron # 4
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|110722835|gb|EE099457.1|EE099457
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|161713293|gb|FC064023.1|FC064023
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110412771|gb|EC978531.1|EC978531
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110698582|gb|EE076248.1|EE076248
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110708697|gb|EE086538.1|EE086538
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|71862349|gb|DT011404.1|DT011404
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110698452|gb|EE075966.1|EE075966
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110703669|gb|EE080715.1|EE080715
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110390768|gb|EC955695.1|EC955695
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|294966068|gb|GW837435.1|GW837435
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAG
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAG
EST: gi|33409192|gb|CF214819.1|CF214819
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110688790|gb|EE067742.1|EE067742
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110712254|gb|EE089663.1|EE089663
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|71856497|gb|DT005552.1|DT005552
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|294967314|gb|GW836668.1|GW836668
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|161714334|gb|FC062635.1|FC062635
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|30135641|gb|CB920979.1|CB920979
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110686195|gb|EE063577.1|EE063577
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110407173|gb|EC972770.1|EC972770
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110387426|gb|EC952089.1|EC952089
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|71864805|gb|DT013860.1|DT013860
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|351033312|gb|FQ446544.1|FQ446544
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110711775|gb|EE088640.1|EE088640
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110710351|gb|EE086609.1|EE086609
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110711720|gb|EE088521.1|EE088521
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110726442|gb|EE102225.1|EE102225
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110374221|gb|EC938853.1|EC938853
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|349812246|gb|FQ411841.1|FQ411841
EST:     AACAGCAAATTGAACAGCTTGAGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110408352|gb|EC973987.1|EC973987
EST:     CAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: CAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|351034002|gb|FQ447919.1|FQ447919
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|351046232|gb|FQ442610.1|FQ442610
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAGCTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
EST: gi|110389896|gb|EC954769.1|EC954769
EST:     AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAG                         ATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA
genomic: AACAGCAAATTGAACAGCTTGGGAATTTCCAATTGCGCATTCATGATCAGgtgaccttgt ... gatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaattgtgcttcaaggattatctaattgctatatcatatgtattgatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTAAGAACTGGAGCTGCTGCAATGAAGGCAATGCAAAAAGCAAC
                                         tattgat  putative branch site (score: 3)
                              tatatcatatgtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaccttgtattattgtgttaactaatgtttcaaacttcaaattgtgcttcaaggattatctaattgctatatcatatgtattgatgttacagATGATAATGTTAGAAGGTGCAAAAGCAACTACTGAGACAGTGGATGCATTAAGAACTGGAGCTGCTGCAATGAAGGCAATGCAAAAAGCAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA