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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagatattgttttgtttttatcaagttagtggctgttaggagggaatttttggaattgctctacaatttgggttgtttgagattgtgcttggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAGTGAAGCTGGGGTATTGTCTAATGGAGCTATGTCTTTGGAACGTGTGCTT

Basic information

species Vitis vinifera
transcript Vv02s0025g04840.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|294964687|gb|GW838490.1|GW838490
EST:     GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAG                         GAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
genomic: GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAGgcgagtctca ... ggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
EST: gi|26258628|gb|CA809691.1|CA809691
EST:     GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAG                         GAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
genomic: GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAGgcgagtctca ... ggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
EST: gi|37183638|gb|CF602992.1|CF602992
EST:     GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAG                         GAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
genomic: GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAGgcgagtctca ... ggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
EST: gi|71862348|gb|DT011403.1|DT011403
EST:     GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAG                         GAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
genomic: GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAGgcgagtctca ... ggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
EST: gi|110391337|gb|EC956303.1|EC956303
EST:     GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAG                         GAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
genomic: GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAGgcgagtctca ... ggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
EST: gi|71854842|gb|DT003897.1|DT003897
EST:     GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAG                         GAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
genomic: GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAGgcgagtctca ... ggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
EST: gi|34546915|gb|CF515147.1|CF515147
EST:     GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAG                         GAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG
genomic: GATCCCGTTACTGTTGATGCAGCCCCTGGAATTTCTGCTTCCGAGTTCAGgcgagtctca ... ggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttttggaattgctctacaatttgggttgtttgagattgtgcttggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAGTGAAGCTGGGGTATTGTCTAATGGAGCTATGTCTTTGGAACGTGTGCTT
                tacaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagatattgttttgtttttatcaagttagtggctgttaggagggaatttttggaattgctctacaatttgggttgtttgagattgtgcttggtgtggcagGAAAGCTATTGATTCCTCGTTGTTCAAGCAATGGCTGAAGAATATGCAGAGTGAAGCTGGGGTATTGTCTAATGGAGCTATGTCTTTGGAACGTGTGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - -tggctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggttgt