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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataatttttctggtagcaatatcttctgatggcaaaagggtctctgactttctgttgaagtagtgattttctaaaccttatatgtgattatttttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCAACCAGTGCGGTTTACTCATCAAAG

Basic information

species Vitis vinifera
transcript Vv12s0028g02660.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0028g02660.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G14060.1 (Glycine max), 3'ss of exon 5
gtaat--aatttttctggtag-caatatcttctgatggcaa---aagggtctctgactttctgttgaagtagtgattttctaaacctt----atatgtgattatt-tttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCAACCAGTGCGGTTTACTCATCAAAG
|| ||    |||||| |  ||   ||||  |||   | | |     |    |||   || |   || |    |  ||  |  | | ||     ||||| ||| ||  | ||||||||||| || ||| ||||||||||||| || |||||||||||||||||    ||||| ||||||   || |||
gtgatttgctttttcagagagatgatattctctttggtctacttgtgctcttctttattccaactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCATTCTTAGCCCCTTTGACTTCTGGTCGTGTTACCATTGCTGTTAGTGCTGTTTACATCTCCAAG

upper sequence: Vv12s0028g02660.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G43840.1 (Glycine max), 3'ss of exon 5
gtaat--aatttttctggtag-caatatcttct---gatggcaaaagggtctctgactttctgttgaagtagtgattttctaaacctt----atatgtgattatt-tttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCAACCAGTGCGGTTTACTCATCAAAG
|| ||    |||||| |  ||   ||||  |||   |    |    |    |||   ||||   || |    |  ||  |  | | ||     ||||| ||| ||  | ||||||||||| || ||| ||||||||||||| || ||||||||||| |||||    ||||| ||||||  ||| |||
gtgatttgctttttcagagagatgatattctctttggcctccttgtgctcttctttatttccactggaaagcttgttcacatatcttttgttgtatgtcattcttgctccagAGGTTTGCTGCGTTCTTAGCCCCTTTGACTTCTGGTCGTGTTACTATTGCTGTTAGTGCTGTTTACATATCCAAG
















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|71859549|gb|DT008604.1|DT008604
EST:     ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGACCCTGATCAG                         AGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCA
genomic: ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGACCCTGATCAGgtaataattt ... tatttttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCA
EST: gi|161715434|gb|FC069034.1|FC069034
EST:     ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGACCCTGATCAG                         AGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCA
genomic: ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGACCCTGATCAGgtaataattt ... tatttttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCA
EST: gi|71854693|gb|DT003748.1|DT003748
EST:     ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGTCCCTGATCAG                         AGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCA
genomic: ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGACCCTGATCAGgtaataattt ... tatttttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCA
EST: gi|71888875|gb|DT037930.1|DT037930
EST:     ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGACCCTGATCAG                         AGGTTTGCGGCCTTC
genomic: ATGTTTCACCAGATGGACAATATTTGAGTGCAATAAAGGACCCTGATCAGgtaataattt ... tatttttcagAGGTTTGCGGCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgactttctgttgaagtagtgattttctaaaccttatatgtgattatttttcagAGGTTTGCGGCCTTCCTAGCCCCTTTGACATCAGGTCGTGTTACCATTGCAACCAGTGCGGTTTACTCATCAAAG
                         ttctaaa  putative branch site (score: 2)
                                            ttatttttc  putative PPT
                                  ttatatgtgattattt  TA-rich tract