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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatttgacatttgcttaatttctaaatttgtggtatagaatatttcataaagtaccaaagatgtattttgttactttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTATCGGGCATTACTGGATCTTTATGAAGAAATGGAGCAAGAGATGGCCAAG

Basic information

species Vitis vinifera
transcript Vv19s0014g01060.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|110389616|gb|EC954469.1|EC954469
EST:     AAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: AAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
EST: gi|110361297|gb|EC924762.1|EC924762
EST:     GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
EST: gi|161719018|gb|FC067638.1|FC067638
EST:     GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
EST: gi|161715569|gb|FC069080.1|FC069080
EST:     GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
EST: gi|161717484|gb|FC068497.1|FC068497
EST:     GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
EST: gi|161721108|gb|FC070370.1|FC070370
EST:     GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
EST: gi|161716139|gb|FC068058.1|FC068058
EST:     GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: GCATACGGTACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
EST: gi|110388132|gb|EC952850.1|EC952850
EST:     ACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAG                         ATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA
genomic: ACAATTGAAGAGCTCACACTCCTTACAGAAGCAATTGAAAGgttaatttga ... ttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtatagaatatttcataaagtaccaaagatgtattttgttactttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTATCGGGCATTACTGGATCTTTATGAAGAAATGGAGCAAGAGATGGCCAAG
                                           ctttgctttc  CT-rich tract
     tagaatatttcataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaatttgacatttgcttaatttctaaatttgtggtatagaatatttcataaagtaccaaagatgtattttgttactttgctttcagATGGGATGCCAGCAGCATAGATCAACTTCCAGATTACATGAAATGCTTTTATCGGGCATTACTGGATCTTTATGAAGAAATGGAGCAAGAGATGGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG