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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACAATGGAGAGATTCTTGGAGTGCACATCTTTGGGTTGCATGCTGCAGACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgtttttctgtgcaaagcaaaatttagagtgcatttgagagtgattctagaaaacgtttatagcaattctaacacttgaatgataaaaattttcaag...

Basic information

species Vitis vinifera
transcript Vv05s0077g01210.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0077g01210.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 13
TGACAATGGAGAGATTCTTGGAGTGCACATCTTTGGGTTGCATGCTGCAGACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgtttttctgtgcaaagcaaaatttagagtgcatttgagagtgattctagaaaacgtttatagcaattctaacacttgaatgataaaaattttcaag
||||| |||||| ||||||||||| ||||| || || ||||||||||| ||||| ||||| || ||||| || || || || || || || ||| | || ||| ||      | |||    |   ||||   || ||    || ||  | |    |||| |  |  ||   |  |                         
TGACACTGGAGAAATTCTTGGAGTTCACATATTAGGTTTGCATGCTGCTGACCTCATCCACGAGGCATCAAACGCCATTGCCCTCGGAACTCGTGTACAAgtaagtgac---gagcattttattgttta---tgaat---ggattgcatttgctcaacgctgtttacatcccccag------------------------
















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|110413521|gb|EC979310.1|EC979310
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|110398357|gb|EC964660.1|EC964660
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|34544811|gb|CF513043.1|CF513043
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|22010656|gb|BQ795675.1|BQ795675
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|110392789|gb|EC957206.1|EC957206
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|110381634|gb|EC934980.1|EC934980
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|110423945|gb|EC990298.1|EC990298
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|110381614|gb|EC934930.1|EC934930
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
EST: gi|34549728|gb|CF517960.1|CF517960
EST:     ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAG                         GACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT
genomic: ACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgttttt ... caccttacagGACATAAAATTTGCTGTTCATGCGCATCCAACCTTGTCAGAAGTGCTGGAT

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGACAATGGAGAGATTCTTGGAGTGCACATCTTTGGGTTGCATGCTGCAGACCTTATCCATGAAGCATCCAATGCTATAGCACTAGGCACACGTATTCAGgtatgtttttctgtgcaaagcaaaatttagagtgcatttgagagtgattctagaaaacgtttatagcaattctaacacttgaatgataaaaattttcaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaaa