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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgattatccttttatatataaacattaaaatagctggcttttttacaagttagaactatttatttgtgagacttcttagatttcgcttttgtgttcttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCATAGTCATAGCAGTGGTCGAGGTGGCCGGGGTGGAGCATCTAGGCGCTCTG

Basic information

species Vitis vinifera
transcript Vv07s0005g00320.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|110684800|gb|EE062491.1|EE062491
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|37189288|gb|CF608637.1|CF608637
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|110728249|gb|EE103650.1|EE103650
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|161720073|gb|FC066729.1|FC066729
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|71876345|gb|DT025400.1|DT025400
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|351031962|gb|FQ460219.1|FQ460219
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|351048120|gb|FQ442090.1|FQ442090
EST:     ATACTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACAGGGTGGGCGTGGACATTCATCATCAATAGGTCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|351017085|gb|FQ424512.1|FQ424512
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|161712126|gb|FC061498.1|FC061498
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|161716478|gb|FC065201.1|FC065201
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|161720061|gb|FC065449.1|FC065449
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|110688099|gb|EE066267.1|EE066267
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|351025780|gb|FQ427792.1|FQ427792
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|352763703|gb|FQ473406.1|FQ473406
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|71856812|gb|DT005867.1|DT005867
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
EST: gi|349807898|gb|FQ402289.1|FQ402289
EST:     ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGG                         GTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT
genomic: ATGCTATTCGAGGTCGTGATGGTTATGATTTTGATGGGCACCGATTGCGGgttgattatc ... ttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaactatttatttgtgagacttcttagatttcgcttttgtgttcttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCATAGTCATAGCAGTGGTCGAGGTGGCCGGGGTGGAGCATCTAGGCGCTCTG
                             tttcgcttttgtgttc  CT-rich tract
     tatttatttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgattatccttttatatataaacattaaaatagctggcttttttacaagttagaactatttatttgtgagacttcttagatttcgcttttgtgttcttcctcatagGTGGAACTGGCACATGGTGGGCGTGGACATTCATCATCAATAGATCGGCATAGTCATAGCAGTGGTCGAGGTGGCCGGGGTGGAGCATCTAGGCGCTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA