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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGAGATATGGGATATATAATTTGGAAGTTATTCATGCTGCAATTCGGATGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagtttctttgcatgtgattgaatgaaggtcttccatttggttttctgcattgtgataaacaaaatgaaattatcaccaaaatgttaatgaaaaaa...

Basic information

species Vitis vinifera
transcript Vv18s0001g12750.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g12750.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA04G03290.1 (Glycine max), 5'ss of exon 5
AATGAGATATGGGATATATAATTTGGAAGTTATTCATGCTGCAATTCGGATGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagtttctttgcatgtgattgaatgaaggtcttccatttggttttctgcattgtgataaacaaaatgaaattatcaccaaaatgt-taatgaaaaaa-
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ATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCAATTCATTTAGCCAAACAGGAAGGCCTTCTTGTTTCCTTGGATTTGGCCAGTTTTGAGgtatt--ttaatttatgtcgcttctcacaatcccccctcccccaaagttcttcatacatgcagacaaaggattgttttggtaaaactgaattctgacgaagg
















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|161714080|gb|FC064381.1|FC064381
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACC
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACC
EST: gi|110697937|gb|EE075379.1|EE075379
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|110718647|gb|EE095720.1|EE095720
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCTTTGGATTTGGCCAGTTTTGAA                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAA
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|110697939|gb|EE075381.1|EE075381
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|110701299|gb|EE078705.1|EE078705
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGGCA-TCAGGGGA
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTG-CAATCAGGGGA
EST: gi|110684947|gb|EE062806.1|EE062806
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|110699416|gb|EE076394.1|EE076394
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|110718530|gb|EE095467.1|EE095467
EST:     GGCCAAAAAGAAGGGCGTATTAT-TATCCTTGGNTTTGGCCAGTTTTGAA                         ATGGGTCAGAACTT
genomic: GGCCAAACAGGAGGGCGTATT-TGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTT
EST: gi|110719756|gb|EE095160.1|EE095160
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|33401764|gb|CF207391.1|CF207391
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|110710884|gb|EE087453.1|EE087453
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGT-ACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|110697936|gb|EE075378.1|EE075378
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
EST: gi|71868003|gb|DT017058.1|DT017058
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTTAGAG-AC-TCTTCTAGAGT-ACTGCA
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTT-AGAGGACCTCTTCTAGAGTTACTGCA
EST: gi|110698651|gb|EE076389.1|EE076389
EST:     TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAG                         ATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT
genomic: TGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagttt ... ccttggccagATGGTTCGGAACTTTAGAGGACCTCTTCTAGAGTTACTGCAATCAGGGGAT

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGAGATATGGGATATATAATTTGGAAGTTATTCATGCTGCAATTCGGATGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCAGTTTTGAGgtatgagtttctttgcatgtgattgaatgaaggtcttccatttggttttctgcattgtgataaacaaaatgaaattatcaccaaaatgttaatgaaaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaaaa