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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATCAGCAAATTCTATAAGAGAGAGATACGGATCTCTGAACCTTCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcattgtatcgttgcttatgcatagattttgaacttagtaatgggcttcaataacagcctatagttatcgaaagtacaaggttcaccagtatgg...

Basic information

species Vitis vinifera
transcript Vv10s0003g05770.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g05770.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA09G03440.1 (Glycine max), 5'ss of exon 4
GCATCAGCAAATTCTATAAGAGAGAGATACGGATCTCTGAACCTTCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcattgtatcgttgcttatgcatagattttgaacttagtaatgggcttcaataacagcctatagttatcgaaag--tacaaggttcaccag-tatgg
||||| |||   || |||| ||||| ||| ||   ||| ||||||||||| ||||||||||||||||||||||||||| |  |  |||| |||||||      |||| || ||  |     || || ||  ||  ||   |  | ||     | ||  ||  |  | |  | |   |||||  |     || | |  
GCATCTGCATTGTCAATAAAAGAGACATATGGCCGTCTAAACCTTCTTATTAATGCATCTGGCATTCTTTCAATACCTGAAGTAATGCATCCAGgtaaaaaatttgtttcattcttcgacaatggacttataa--tatccactgcctattgcagcatactggaaattttaagatcctacaatctctgatagctgta-
















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|71871481|gb|DT020536.1|DT020536
EST:     TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAG                         AAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
genomic: TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcat ... tccagtacagAAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
EST: gi|294964556|gb|GW838359.1|GW838359
EST:     TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAG                         AAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
genomic: TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcat ... tccagtacagAAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
EST: gi|77585998|gb|DV222098.1|DV222098
EST:     TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAG                         AAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
genomic: TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcat ... tccagtacagAAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
EST: gi|110416872|gb|EC982880.1|EC982880
EST:     TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAG                         AAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
genomic: TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcat ... tccagtacagAAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
EST: gi|71873455|gb|DT022510.1|DT022510
EST:     TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAG                         AAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG
genomic: TCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcat ... tccagtacagAAACAACACTGAGCAAAGTGCAGAAATCATCTTTGCTTCTAGCCTATGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATCAGCAAATTCTATAAGAGAGAGATACGGATCTCTGAACCTTCTTATCAATGCATCTGGCATTCTTTCAATACCTAATATTTTGCAACCAGgtattctcattgtatcgttgcttatgcatagattttgaacttagtaatgggcttcaataacagcctatagttatcgaaagtacaaggttcaccagtatgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaagta