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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGGAGATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctctattaattattcaattcttttataagcaaaaccttttacctttggagcaagtttttgccatggggctagcaacatgagtacctatatctctc...

Basic information

species Vitis vinifera
transcript Vv11s0065g00640.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G023798_T02 (Zea mays), 5'ss of exon 10
AATGGAGATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctctattaattattc-aattcttttataagcaaaaccttttac-ctttggagcaagtttttgccatggggctagcaacatgagtacctatatctctc
||||   ||||||| || || || ||||||||||| ||||||||| | |||||||||||||        | || ||| ||  | |  | |     | ||    |  | |  | |||   |   | ||      |  |  | |  |||     ||  |  
AATGATAATGGCGGTTTCGCGACATATGAACTCACAAGATCTTATCCCTGGTTGGAGgtaggtggatgaacttcttcgaaaccctccacacatcgagccgcaaatacatatgcgcataatgcagacacttttttgtctgcgtatgtatgcgcatggc--
















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|18458985|gb|BM437263.1|BM437263
EST:     GCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         -TAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: GCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|71865816|gb|DT014871.1|DT014871
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|32248816|gb|CD714635.1|CD714635
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|161713441|gb|FC063719.1|FC063719
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|30327265|gb|CD010527.1|CD010527
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|161717232|gb|FC067238.1|FC067238
EST:     GAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
genomic: GAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|32249043|gb|CD714862.1|CD714862
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|32269610|gb|CD718769.1|CD718769
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|30327518|gb|CD010780.1|CD010780
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC
EST: gi|161713540|gb|FC063135.1|FC063135
EST:     ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAG                         TTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTACCC
genomic: ATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctcta ... tctatttcagTTAATCAATCCTGCTGAAACTTTTGGCGACATTGTTATTGATTATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGGAGATGGCGGCTTTGCAACCTATGAACTCACTAGATCTTATGCTTGGTTGGAGgtagcctctattaattattcaattcttttataagcaaaaccttttacctttggagcaagtttttgccatggggctagcaacatgagtacctatatctctc

- - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agcaaaa