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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGGGTTTCCATGAGCGTTTCGGTGGGGTCCAGGACCTGCGTTGATGACGCGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttgggtttgatgcgaaaatttccagaatttttaattcctttttgtaaattgaagtgaatttggagttttggtacagattaggtcggaaagattgt...

Basic information

species Vitis vinifera
transcript Vv06s0004g07380.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g07380.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: AT2G30200.1 (Arabidopsis thaliana), 5'ss of exon 1
CAGGGTTTCCATGAGCGTTTCGGTGGGGTCC---AGGACCTGCGTTGATGACGCGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttg-ggtttgatgcgaaaatttccagaatttttaattc---ctttttgtaaattgaagtgaattt-ggagttttggtacagattaggtcggaaagattgt
| |||| |||||||| || | || || || || ||| | || | |||| || |||||||| ||||| | ||||||||||||||| |||||||| | || | || ||| | | | | | | ||| || | | | || | ||||| ||| ||||| | | || | | ||||
---GATTTCTATGAGCGTCTCTGCTGGATCTCAGAGTACTACTGTTCACGATTCTCTGTTCGCTGATTACAAACCCACCTCTGCTTTTCTCTTTCCCGGTCAGgtaacttccgattacatgttatcaatctgaacaatgaaaatgtggactctgattgatttcgtatcaatttaggaaatttggaattgcccagattgaaaag-----
















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|161710827|gb|FC059885.1|FC059885
EST:     CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAG                         GGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT
genomic: CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttggg ... aaaattgcagGGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT
EST: gi|37183659|gb|CF603013.1|CF603013
EST:     CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAG                         GGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCANAGTGTG
genomic: CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttggg ... aaaattgcagGGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTG
EST: gi|161714260|gb|FC063524.1|FC063524
EST:     CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAG                         GGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT
genomic: CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttggg ... aaaattgcagGGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT
EST: gi|161713818|gb|FC063453.1|FC063453
EST:     CGTTGTTTGCGGATTACAAGGCCACTTGTGCTTTTCTCTTTCCTGGTCAG                         GGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT
genomic: CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttggg ... aaaattgcagGGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT
EST: gi|71872032|gb|DT021087.1|DT021087
EST:     CGTTGTTTGCGGATTACAAGGCCACTTGTGCTTTTCTCTTTCCTGGTCAG                         GGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT
genomic: CGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttggg ... aaaattgcagGGTGCTCAAGCTGTTGGAATGGGTTCAGAGGCTCAAAGTGTGCCAGCTGCT

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGGGTTTCCATGAGCGTTTCGGTGGGGTCCAGGACCTGCGTTGATGACGCGTTGTTTGCGGATTACAAGCCCACTTGTGCTTTTCTCTTTCCTGGTCAGgtgagttgggtttgatgcgaaaatttccagaatttttaattcctttttgtaaattgaagtgaatttggagttttggtacagattaggtcggaaagattgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaga