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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggggaacctaaaaggctaattggccatgctaatttttcctgtagatagtcatctggggaaagctgaatatgacagtcattttttcctattctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTTAGAACATGCAGGAGCAAGAAAGGTACCTGTCATAATTGAGGATTCTCAG

Basic information

species Vitis vinifera
transcript Vv14s0060g02160.t01
intron # 9
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|34544987|gb|CF513219.1|CF513219
EST:     TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAA                         AGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
genomic: TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAAgtaagtgctt ... tctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
EST: gi|110723416|gb|EE100702.1|EE100702
EST:     TGGGACAAGAATGCTGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAA                         AGGGTTGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
genomic: TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAAgtaagtgctt ... tctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
EST: gi|110375703|gb|EC940714.1|EC940714
EST:     TGGGACAAGAATGCTGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAA                         AGGGTTGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
genomic: TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAAgtaagtgctt ... tctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
EST: gi|110385484|gb|EC950016.1|EC950016
EST:     TGGGACAAGAATGCTGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAA                         AGGGTTGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
genomic: TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAAgtaagtgctt ... tctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
EST: gi|110383404|gb|EC947776.1|EC947776
EST:     TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAA                         AGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
genomic: TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAAgtaagtgctt ... tctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
EST: gi|110413624|gb|EC979419.1|EC979419
EST:     TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAA                         AGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
genomic: TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAAgtaagtgctt ... tctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
EST: gi|34545979|gb|CF514211.1|CF514211
EST:     TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAA                         AGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT
genomic: TGGGACAAGAATGCCGGCATTCAAGTTGTTGATGGTATATAAGTTTCCAAgtaagtgctt ... tctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagtcatctggggaaagctgaatatgacagtcattttttcctattctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTTAGAACATGCAGGAGCAAGAAAGGTACCTGTCATAATTGAGGATTCTCAG
                               tcattttttcctattc  CT-rich tract
                               tcatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggggaacctaaaaggctaattggccatgctaatttttcctgtagatagtcatctggggaaagctgaatatgacagtcattttttcctattctatgacagAGGGTCGAAGTTCAGTCATTTGAAGAGCAACAGGATATCCTACAGAGAGTTAGAACATGCAGGAGCAAGAAAGGTACCTGTCATAATTGAGGATTCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - -aacctaa
- - - - - - - - - - - - ccatgct
- - - - - - - - - - - - - - - - - - ttcctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaagc