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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGTCCATCTCGGCTTCTCCTTCTCAATCTCAATCTACGGCATCGCAAGCGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctttttctttttcttttttcttttttccttttttctttccctcgaaggaattctattcattaattatttatttttaggatatttaaattggcc...

Basic information

species Vitis vinifera
transcript Vv11s0016g05730.t01
intron # 1
splice site 5'
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|161713644|gb|FC063435.1|FC063435
EST:     CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAG                         TTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
genomic: CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctt ... ttgattttagTTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
EST: gi|161705983|gb|FC054907.1|FC054907
EST:     CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAG                         TTTCTTGAGAAAGCTCTTGAAGAATGTGGCAA
genomic: CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctt ... ttgattttagTTTCTTGAGAAAGCTCTTGAAGAATGTGGCAA
EST: gi|110689393|gb|EE065576.1|EE065576
EST:     CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAG                         TTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
genomic: CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctt ... ttgattttagTTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
EST: gi|349827156|gb|FQ421429.1|FQ421429
EST:     CGTCGGTGCTTGATCATCTCAGAGCTATCTTCCCTGATATGGACAAGCAG                         TTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
genomic: CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctt ... ttgattttagTTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
EST: gi|351027398|gb|FQ444647.1|FQ444647
EST:     CGTCGGTGCTTGATCATCTCAGAGCTATCTTCCCTGATATGGACAAGCAG                         TTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
genomic: CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctt ... ttgattttagTTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
EST: gi|110688137|gb|EE066345.1|EE066345
EST:     CGTCGGTGCTTGATCATCTCAGAGCTATCTTCCCTGATATGGACAAGCAG                         TTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
genomic: CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctt ... ttgattttagTTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
EST: gi|110701421|gb|EE078969.1|EE078969
EST:     CGTCGGTGCTTGATCATCTCAGAGCTATCTTCCCTGATATGGACAAGCAG                         TTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC
genomic: CGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctt ... ttgattttagTTTCTTGAGAAAGCTCTTGAAGAATGTGGCAATGATTTGGATTCCACAATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGGTCCATCTCGGCTTCTCCTTCTCAATCTCAATCTACGGCATCGCAAGCGTCGGTGCTTGATCATCTCAGAGCTCTCTTCCCTGATATGGACAAGCAGgtacgtcctttttctttttcttttttcttttttccttttttctttccctcgaaggaattctattcattaattatttatttttaggatatttaaattggcc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaggaat