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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagctccttcccttctttgcttaccttccttatctttttggttgaagtttgctagagatttcctctatttaaggatatagtttgattagtttcttgaaagcagGTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTAGCTTCAGCAGCAAAAGTTGTCCGTAAG

Basic information

species Vitis vinifera
transcript Vv01s0011g01420.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G09170.1 (Glycine max), 3'ss of exon 9
gttagctccttcccttctttgcttaccttccttatctttttggttgaagttt---gctagagatttcctct-atttaaggatatagtttgattagtttcttgaaagcagGTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTAGCTTCAGCAGCAAAAGTTGTCCGTAAG
      |  ||   ||  |||||| |  |  || |||  ||  |  |  ||    |  ||  ||  | ||| |||||| || |||  ||||||||  | |   || ||||| || ||||||||||||||||| || ||||| || |||||||||||||| ||| | || ||||||||||||||||||
-----gtaatttattttcttgcttcctatttttctctcattaatcaattttcctggtcagttatcacttcttatttaaagaaata--ttgattaggatttgtgaaacagGTTCGAGTTGCTGATCCAACTTTTTTAGGTTACTTCATTGATAAAGGTGTTGCTGCTGCTGCAAAAGTTGTCCGTAAG

upper sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 9
gttagctccttcccttctttgcttaccttccttatctttttggttgaagtttgctagagatttcctct-atttaaggatatagtttgattagtttcttgaaagcagGTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTAGCTTCAGCAGCAAAAGTTGTCCGTAAG
      |  ||   ||  |||||| |  |   | |||   |   |     |||  ||  ||  | ||| |||||| || |||  ||||||||  | |   || ||||| || ||||| ||||||||||| || ||||| || |||||||||||||| ||| | || |||||||||||||| |||
-----gtaatttattttcttgcttcctatttatctctcaatcagttttccttgtcagttatcacttcttatttaaagaaata--ttgattaggatttgtgaaacagGTTCGAGTTGCCGATCCAACTTTTTTAGGTTACTTCATTGATAAAGGTGTTGCTGCTGCTGCAAAAGTTGTCCGCAAG
















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|110401181|gb|EC967782.1|EC967782
EST:     CCACAAGAGGAGTCAAGTACTTAGATTGCTATGGAGTTGACAATGCACTG                         GTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTA
genomic: CCACAAGAGGAGTCAAGTACTTAGATTGCTATGGAGTTGACAATGCACTGgttagctcct ... ttgaaagcagGTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTA
EST: gi|161713618|gb|FC063422.1|FC063422
EST:     CCACAAGAGGAGTCAAGTACTTAGATTGCTATGGAGTTGACAATGCACTG                         GTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTA
genomic: CCACAAGAGGAGTCAAGTACTTAGATTGCTATGGAGTTGACAATGCACTGgttagctcct ... ttgaaagcagGTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTA
EST: gi|30134049|gb|CB919387.1|CB919387
EST:     CCACAAGAGGAGTCAAGTACTTAGATTGCTATGGAGTTGACAATGCACTG                         GTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTA
genomic: CCACAAGAGGAGTCAAGTACTTAGATTGCTATGGAGTTGACAATGCACTGgttagctcct ... ttgaaagcagGTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctagagatttcctctatttaaggatatagtttgattagtttcttgaaagcagGTCCGTGTTGCTGATCCAACTTTCTTGGGTTATTTTATTGATAAAGGTGTAGCTTCAGCAGCAAAAGTTGTCCGTAAG
                               gtttgat  putative branch site (score: 5)
                                         tttctt  putative PPT
                 tatttaaggatata  TA-rich tract