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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actgaactttctcttaaccaaaatcaaattggaaattgaatttcttttgttaaattttgctgtcaagaaaagatatattagttttgtttcattgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGAGGATTCCAGGATGTTATTTTAGCTTGATTTGATCAGTATTCAGTCTTAT

Basic information

species Vitis vinifera
transcript Vv01s0010g03610.t01
intron # 3
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|110424444|gb|EC990806.1|EC990806
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|110714874|gb|EE092283.1|EE092283
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|26260652|gb|CA811715.1|CA811715
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|26261206|gb|CA812269.1|CA812269
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|110384344|gb|EC948774.1|EC948774
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|110409815|gb|EC975487.1|EC975487
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|110717809|gb|EE093989.1|EE093989
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|110727524|gb|EE104379.1|EE104379
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|110407142|gb|EC972738.1|EC972738
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
EST: gi|110392429|gb|EC957843.1|EC957843
EST:     CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATG                         GAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA
genomic: CTACGACGACCTTCTCCAACAGAACTTTTACAAGTCCAAGTAAATGAATGgtctgaatct ... attgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttaaattttgctgtcaagaaaagatatattagttttgtttcattgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGAGGATTCCAGGATGTTATTTTAGCTTGATTTGATCAGTATTCAGTCTTAT
                                            cattgat  putative branch site (score: 4)
                                         tttcatt  CT-rich tract
                      aaaagatatattagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
actgaactttctcttaaccaaaatcaaattggaaattgaatttcttttgttaaattttgctgtcaagaaaagatatattagttttgtttcattgatgcagGAAGCTCAGAAGCCATTAGCAGAATGCTTTACATCTGTCTTAAAGGGTGGAGGATTCCAGGATGTTATTTTAGCTTGATTTGATCAGTATTCAGTCTTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - aaatcaa
- - - - - - - - - - - - - - - - aaattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa