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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaaccgctactccacctactattatcaaaatgtttgaataatatttgacttcataataccatgcccggccattttaatgcgtatcttggatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACAGAGGCCCCAGTGGAGACACCTGCAACATTAAGTGAAGAGAAGGAAAAGG

Basic information

species Vitis vinifera
transcript Vv14s0030g02220.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|33406751|gb|CF212378.1|CF212378
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|33406664|gb|CF212291.1|CF212291
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|110694209|gb|EE071125.1|EE071125
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|110374414|gb|EC939153.1|EC939153
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|26257285|gb|CA808348.1|CA808348
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|110374006|gb|EC938471.1|EC938471
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|71857098|gb|DT006153.1|DT006153
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|46918623|gb|CN547952.1|CN547952
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|26257555|gb|CA808618.1|CA808618
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|351023666|gb|FQ448217.1|FQ448217
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCGGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|352794943|gb|FQ477053.1|FQ477053
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|110383012|gb|EC947353.1|EC947353
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|110388360|gb|EC953099.1|EC953099
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|351017435|gb|FQ435788.1|FQ435788
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|71866536|gb|DT015591.1|DT015591
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|26256805|gb|CA807868.1|CA807868
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
EST: gi|110691305|gb|EE069255.1|EE069255
EST:     TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAG                         GCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA
genomic: TGCCGGAGGTCGGCCGCAGCATTGGAAAGACTGTCAAAAGCTTTCAACAGgtcggttcct ... gatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgacttcataataccatgcccggccattttaatgcgtatcttggatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACAGAGGCCCCAGTGGAGACACCTGCAACATTAAGTGAAGAGAAGGAAAAGG
                            ttttaat  putative branch site (score: 3)
                           attttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaaccgctactccacctactattatcaaaatgtttgaataatatttgacttcataataccatgcccggccattttaatgcgtatcttggatgttgcagGCAGCAAAGGAGTTTGAAACTGAGCTGAAAAAAGAACCTGCTTCCGTCACAGAGGCCCCAGTGGAGACACCTGCAACATTAAGTGAAGAGAAGGAAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
taaaacc
- - - - - - -ccaccta
- - - - - - - - - - - - - tcaaaat
- - - - - - - - - - - - - - - - - - -gaataata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgcc