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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGGCCATACGAGCTGAGACCCTTCTACACAGTCTGAGGCTTCGTTTCCCTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttccccatcttctactctgtatctaatgaatcatattgttggttgtctggtctgaaatgattttaaacatcttttaaatttcttttcatttttc...

Basic information

species Vitis vinifera
transcript Vv03s0038g03620.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g03620.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT4G38430.1 (Arabidopsis thaliana), 5'ss of exon 4
TCTGGCCATACGAGCTGAGACCCTTCTACACAGTCTGAGGCTTCGTTTCCCTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttccccatcttctactctgtatctaatgaatcatattgttggttgtctggtctgaaatgattttaaacatcttttaaatttcttttcatttttc
 || |      |||| ||||||||  | || ||||| ||| | |||||||| || |||||||||||  |  | ||||||||||||||||||||||| ||||||  ||     ||  | |    |||   |      |   ||  |     |      || | || ||||  || |  || |   | |  || ||      
CCTTGTGCAGAGAGCCGAGACCCTCTTGCAGAGTCTCAGGATCCGTTTCCCGGGACTTCCCCAGACAACGCTGGACATGAACAAGATTCAGTACAACAAGgtacatt-----atagtttggagtgtgctttgctggttgcatcatgaaacgatg---cttagataattt--aagagtttgtgtgtgttcttgcag-----
















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|33403265|gb|CF208892.1|CF208892
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|33410182|gb|CF215809.1|CF215809
EST:     GATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: GATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|34546159|gb|CF514391.1|CF514391
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|110427278|gb|EC993713.1|EC993713
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|351015251|gb|FQ445535.1|FQ445535
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|34545163|gb|CF513395.1|CF513395
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|110391020|gb|EC955971.1|EC955971
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|110381935|gb|EC938049.1|EC938049
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|33401747|gb|CF207374.1|CF207374
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|156735736|gb|EV239857.1|EV239857
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
EST: gi|349813090|gb|FQ411330.1|FQ411330
EST:     CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAG                         GATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA
genomic: CTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttcc ... attgttacagGATGTAGGGCAGTCAATTCTAGAAAGTTATTCAAGGGTAATGGAGAGCTTA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGGCCATACGAGCTGAGACCCTTCTACACAGTCTGAGGCTTCGTTTCCCTGGCCTTCCCCAGACTGCTTTAGACATGAACAAGATTCAGTACAATAAGgtatttttccccatcttctactctgtatctaatgaatcatattgttggttgtctggtctgaaatgattttaaacatcttttaaatttcttttcatttttc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaatga