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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAAGTCTGAAAGTCCAGATGAAGCATTGGAGATGGCAAAGTTTATATCTGCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgcttctatttcccccttttttatactcacacattagaatatattttgtatgcatgccttttttgctttgccttttggaaactgttgtatacg...

Basic information

species Vitis vinifera
transcript Vv14s0068g00220.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G15610.2 (Arabidopsis thaliana), 5'ss of exon 3
CGAAGTCTGAAAGTCCAGATGAAGCATTGGAGATGGCAAAGTTTATATCTGCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatat----tgcttctatttcccccttttttatactcacacattagaatatattttgtatgcatgccttttttgctttgccttttggaaactgttgtatacg---------
 |||  |  | ||||| || ||||   | || ||||  ||   |||| |||| ||  ||| |||||||||||| ||||| ||| |||||||||||||||||||  ||    ||  ||| |   |   | | |  ||        | || || ||||||  |||  |   |||| || | ||  |||   |  ||||||  |            
AGAATGCGAACAGTCCTGAGGAAGTCCTTGAAATGGTGAAAGCTATAGCTGCTAAGGTTATTCAACAACCAAACGACAAAGCTTCATTGCGTTTGAAGATgtatgatcgtgtgactctttgagctaatctctcttaggagtctttgagcatctatttta-atgtttcatttttgtgttatgtgtttctcat-ctgttgcttgtctctgtgcag
















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|77586427|gb|DV222339.1|DV222339
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|110687972|gb|EE065988.1|EE065988
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|161707956|gb|FC057777.1|FC057777
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|110712478|gb|EE090143.1|EE090143
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|71863149|gb|DT012204.1|DT012204
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|110421499|gb|EC987796.1|EC987796
EST:     CTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: CTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|30127269|gb|CB912608.1|CB912608
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|110712589|gb|EE090382.1|EE090382
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|110729402|gb|EE105325.1|EE105325
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|110390588|gb|EC955507.1|EC955507
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|71862881|gb|DT011936.1|DT011936
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
EST: gi|71881662|gb|DT030717.1|DT030717
EST:     GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGAT                         ATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT
genomic: GCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgc ... ctcttttcagATTGTTTAATCTTTACAATCTATTAGAGAATCCATACAGCCGATTCTATGT

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGAAGTCTGAAAGTCCAGATGAAGCATTGGAGATGGCAAAGTTTATATCTGCAAAAATTACTCAACAACCAAATGACAAGGCTGCATTGCGTTTGAAGATgtaatattgcttctatttcccccttttttatactcacacattagaatatattttgtatgcatgccttttttgctttgccttttggaaactgttgtatacg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttggaaa