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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatctctgaaaaatatcacttttaaaaaagttcagcatgtaaccttccttgaaaattttatgttcatttctaatgacttcctcgtgatctttgtg...

Basic information

species Vitis vinifera
transcript Vv06s0004g00060.t01
intron # 4
splice site 5'
intron type U2

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|110688296|gb|EE066688.1|EE066688
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|110711311|gb|EE087659.1|EE087659
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|110702984|gb|EE079435.1|EE079435
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|110713034|gb|EE088602.1|EE088602
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|27586580|gb|CB009275.1|CB009275
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|110692596|gb|EE072018.1|EE072018
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|71859349|gb|DT008404.1|DT008404
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|71857308|gb|DT006363.1|DT006363
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|161716048|gb|FC069121.1|FC069121
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|294966527|gb|GW837662.1|GW837662
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|110693463|gb|EE069714.1|EE069714
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
EST: gi|110688262|gb|EE066614.1|EE066614
EST:     AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAG                         TTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG
genomic: AGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatct ... ccatttgtagTTGTCATCTTTAGATATTTCTGGAAGCAAACATGCAGACCCAGCACTTGTG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTCTGGGGAGAAAGATCAGCAGCCTGTGGATCTTGCACTTGTTTTTGTTGGTAGAGAGgtgagaatctctgaaaaatatcacttttaaaaaagttcagcatgtaaccttccttgaaaattttatgttcatttctaatgacttcctcgtgatctttgtg

- - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcctc