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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcagatttggaatttcgatttgttttatttcctgcattttctcggcaaccgaacacggcattagtgggtacgttttgatggatttggaattttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTTTCGAGGATGAAGTCTTCTCTGGTTCCGCTGGCAACCTTGATTGGTCGCG

Basic information

species Vitis vinifera
transcript Vv14s0060g01580.t01
intron # 1
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|161712240|gb|FC061614.1|FC061614
EST:     TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACT                         ----ATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
genomic: TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACTgtaagtctag ... attttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
EST: gi|110687767|gb|EE065551.1|EE065551
EST:     GGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACT                         GAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
genomic: GGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACTgtaagtctag ... attttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
EST: gi|161713310|gb|FC063693.1|FC063693
EST:     TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACT                         GAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
genomic: TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACTgtaagtctag ... attttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
EST: gi|110730227|gb|EE107063.1|EE107063
EST:     TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACT                         GAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
genomic: TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACTgtaagtctag ... attttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
EST: gi|71861531|gb|DT010586.1|DT010586
EST:     TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACT                         ----ATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
genomic: TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACTgtaagtctag ... attttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
EST: gi|110699523|gb|EE076606.1|EE076606
EST:     TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACT                         GAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT
genomic: TCTTCGGTTTTTACAGCTCGATCTGCTCGAGTATTCTCAATGTCTGCACTgtaagtctag ... attttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcaaccgaacacggcattagtgggtacgttttgatggatttggaattttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTTTCGAGGATGAAGTCTTCTCTGGTTCCGCTGGCAACCTTGATTGGTCGCG
                             ttttgat  putative branch site (score: 4)
                                            aattttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcagatttggaatttcgatttgttttatttcctgcattttctcggcaaccgaacacggcattagtgggtacgttttgatggatttggaattttgacagGAAGATCTTGGAAATGTTGAAACATAGATTAAGATGAGTGAGACTGAAGTTTCGAGGATGAAGTCTTCTCTGGTTCCGCTGGCAACCTTGATTGGTCGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - -tcctgca
- - - - - - - - - - - - - - - - - - - - - - - - aaccgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgga