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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTACGCGCCGATCTGCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgattgcaaggaattttgatgttcgctttttttcgatgattacggagaaaattgggaggaaattaacgaaacatgaaattttgttggattcctga...

Basic information

species Vitis vinifera
transcript Vv17s0000g00500.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g00500.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G010202_T01 (Zea mays), 5'ss of exon 2
GGTTACGCGCCGATCTGCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtt-tgattgcaaggaattttgatgttcgctttttttcgatg-attacggagaaaattgggaggaaattaacgaaacatgaaattttgttggattcctga
|| ||||||||||||||||| || || |||||||||||||  ||  | || || || || || ||||||    || || |     |   | ||     |  |||   ||   ||| |  ||  |       || |   |  |  |     | |   | |   |  || 
GGCTACGCGCCGATCTGCTTGGGACTCGAGGATTTCTACACGCGACGCCTCTACCTCCGCATCCAGgtgaggcgactg-acaacgtcgcgttgcatattcctttctaatttgttaggtcgagcaagcaatagagagccattattccctttactccctggtccttatg-
















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|71854830|gb|DT003885.1|DT003885
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|71874609|gb|DT023664.1|DT023664
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|110709258|gb|EE084571.1|EE084571
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|71864618|gb|DT013673.1|DT013673
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|71861348|gb|DT010403.1|DT010403
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|161706607|gb|FC057225.1|FC057225
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|71867645|gb|DT016700.1|DT016700
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|161718030|gb|FC068557.1|FC068557
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
EST: gi|161717233|gb|FC067239.1|FC067239
EST:     GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAG                         GACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA
genomic: GCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgatt ... gaatatccagGACTGTTTTGGCCGGCCAATATCGAGTGCTCCAGATGCTTGGTTTGATGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTACGCGCCGATCTGCTTAGGGCTTGAGGATTTCTACATTCGCAGGCTGTATCTTCGTATTCAGgtgtttgattgcaaggaattttgatgttcgctttttttcgatgattacggagaaaattgggaggaaattaacgaaacatgaaattttgttggattcctga

- - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaggaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaaa