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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatttaagaaatatatattctcatatctatgaatttgaacatgatttatattgtttcttcctggtctgaattttttcttgaactatttcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTGTCTTCCTACAAGGCATGCCTTGAATTTACTCCAACGCTAGTGGATGTTT

Basic information

species Vitis vinifera
transcript Vv01s0127g00560.t01
intron # 2
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|110724229|gb|EE099872.1|EE099872
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAA                         GTGCCTGTGTCTGAACTAGAAAGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110687600|gb|EE065192.1|EE065192
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110701031|gb|EE078206.1|EE078206
EST:     CTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: CTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110712094|gb|EE089319.1|EE089319
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110698141|gb|EE075371.1|EE075371
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110722885|gb|EE099563.1|EE099563
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110713926|gb|EE090272.1|EE090272
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110725983|gb|EE103012.1|EE103012
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|34546766|gb|CF514998.1|CF514998
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|161714184|gb|FC062929.1|FC062929
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|110724576|gb|EE100526.1|EE100526
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
EST: gi|77587883|gb|DV223143.1|DV223143
EST:     TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAG                         GTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG
genomic: TCTTAGTCTCTCAGTCCCGTGACTATGTAATTTCAACTGATGGAAAGAAGgtgagttatt ... tcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttatattgtttcttcctggtctgaattttttcttgaactatttcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTGTCTTCCTACAAGGCATGCCTTGAATTTACTCCAACGCTAGTGGATGTTT
                                        ctatttc  CT-rich tract
                          aattttttcttgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttatttaagaaatatatattctcatatctatgaatttgaacatgatttatattgtttcttcctggtctgaattttttcttgaactatttcaatacaagGTGCCTGTGTCTGAACTAGAAGGGAAGTTCGTTGGGCTGTTTTTCTCATTGTCTTCCTACAAGGCATGCCTTGAATTTACTCCAACGCTAGTGGATGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA