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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGATGTTTATCCAGTGGAGCCTTTCAACGACTTTTCTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatctatttgctactgaggattcctctacattttactttatctgtttcttaccatgttcaactcatacttagccaaacactgtacagaagtgag...

Basic information

species Vitis vinifera
transcript Vv00s0220g00110.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0220g00110.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G007647_T01 (Zea mays), 5'ss of exon 7
GGTGATGTTTATCCAGTGGAGCCTTTCAACGACTTTTCTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaag-atatctatttgctactgaggattc-ctctacattttactttatctgt-ttcttaccatgttcaactc-atacttagccaaacactgtacagaagtgag
|||||||||||||| |||||  ||| | |   ||   | | ||| | ||| |||||| |||||||||||| |||| ||||||| |||||||| |||   |||| |  ||   ||||  |  |   |  ||| |   || | ||  |    || || | ||  | | ||     |  ||  |   ||     
GGTGATGTTTATCCTGTGGAATCTTACGAGAGCT---CAGCTAACCAAGTACTTGATGCTCACTGGGGTGTTCTGGATGATGATGATgtaagtatagagatttccatcttgtgattggcatttagtgctacatggactatattgatgatttgctcgattctgtgcataattgcatccttaatctaat----
















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|349818318|gb|FQ409093.1|FQ409093
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         CCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|352786516|gb|FQ479125.1|FQ479125
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351035256|gb|FQ458613.1|FQ458613
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351034594|gb|FQ457951.1|FQ457951
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTGGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351012893|gb|FQ430456.1|FQ430456
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351031526|gb|FQ459783.1|FQ459783
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351046895|gb|FQ454505.1|FQ454505
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351043332|gb|FQ451384.1|FQ451384
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351040114|gb|FQ425200.1|FQ425200
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351044506|gb|FQ443037.1|FQ443037
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|352795642|gb|FQ480230.1|FQ480230
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|349822000|gb|FQ408329.1|FQ408329
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         CCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351017801|gb|FQ436154.1|FQ436154
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351032123|gb|FQ460380.1|FQ460380
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351054122|gb|FQ450204.1|FQ450204
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
EST: gi|351039410|gb|FQ461277.1|FQ461277
EST:     CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGAT                         TCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT
genomic: CTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatc ... aaaaattcagTCAAGTGGGCTTCGATCACACACTTTATCTATGCTAGTGAACGATACTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGATGTTTATCCAGTGGAGCCTTTCAACGACTTTTCTGTTAATCCAGTTCTTGATCCTCACTGGGGTGCTCTGAATGATGAAGATgtaagatatctatttgctactgaggattcctctacattttactttatctgtttcttaccatgttcaactcatacttagccaaacactgtacagaagtgag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaagtga