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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtgaattcgtgcccagagattagggtttttggtaacgatttaaaaataaatttgcggattccgtgaaaatcctagactctttttatggtggattgttgttttctgatgtgggcatgggttttctagGCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTTGCCGGGTTGCTCAACTGGCCTCAGGGGACCTTTGCTTCCAAG

Basic information

species Vitis vinifera
transcript Vv05s0049g00470.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g00470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G34520.2 (Glycine max), 3'ss of exon 1
gtctgtgaattcgtgcccagagattagggtttttggtaacgatttaaaaataaatttgcggattccgtgaaaat-cctagactctttttat--ggtggattgttgttttctgatgtgggcatgggttttctagGCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTTGCCGGGTTGCTCAACTGGCCTCAGGGGACCTTTGCTTCCAAG
                                          | | |  || | | | |   | |  |     |   | || | || ||||   |||| || ||  ||  | ||            |||  ||||||||||||| |||||||||||||| ||||| ||| | || ||  | |||||||||||||| ||||| |||||||| |||
-----------------------------------------gtattattattactcttcttctcctttctttttatttggattattattattaagtgggttttttcttcttaatta----------tttacagGCCATTGATGATGATTGCAATCAAACTGGGCAGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAG

upper sequence: Vv05s0049g00470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G33110.2 (Glycine max), 3'ss of exon 1
gtctgtgaattcgtgcccagagattagggtttttggtaacgatttaaaaataaatttgcggattccgtgaaaatcctagactctttttatggtggattgttgttttctgatgtgggcatgggttttctagGCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTTGCCGGGTTGCTCAACTGGCCTCAGGGGACCTTTGCTTCCAAG
                                            ||  | ||  ||| |   |  |  |    |  ||   |  | ||||| |   |   |||||  |    |    ||    |||  ||||||||||||||||||||||||||||||| || ||| | || ||  | |||||||||||||| || || |||||||| |||
-------------------------------------------gtattacta--tttccttttatctggggtttattatgtttgtattatgattattaagtgtttgttttcttctttatta--tttacagGCCATTGATGACGATTGCAATCAAACAGGCCAGATGATAGCAGGACTCCTCAACTGGCCTCAAGGCACTTTTGCTTCTAAG
















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|37185949|gb|CF605302.1|CF605302
EST:     AAGCTCTCGTCGATGTGGAGAAGCCTGGCCTCCTTATTCTGGGCAAACAG                         GCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTAGCCGGGTTGCTC
genomic: AAGCTCTCGTCGATGTGGAGAAGCCTGGCCTCCTTATTCTGGGCAAACAGgtctgtgaat ... ggttttctagGCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTTGCCGGGTTGCTC
EST: gi|27582621|gb|CB005316.1|CB005316
EST:     AAGCTCTCGTCGATGTGGAGAAGCCTGGCCTCCTTATTCTCGGCAAACAG                         GCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTAGCCGGGTTGCTC
genomic: AAGCTCTCGTCGATGTGGAGAAGCCTGGCCTCCTTATTCTGGGCAAACAGgtctgtgaat ... ggttttctagGCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTTGCCGGGTTGCTC
EST: gi|161712333|gb|FC061658.1|FC061658
EST:     AAGCTCTCGTCGATGTGGAGAAGCCTGGCCTCCTTATTCTCGGCAAGCAG                         GCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTAGCTGGGTTGCTC
genomic: AAGCTCTCGTCGATGTGGAGAAGCCTGGCCTCCTTATTCTGGGCAAACAGgtctgtgaat ... ggttttctagGCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTTGCCGGGTTGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagactctttttatggtggattgttgttttctgatgtgggcatgggttttctagGCCATTGATGACGATTGCAATCAAACAGGGCAAATGGTTGCCGGGTTGCTCAACTGGCCTCAGGGGACCTTTGCTTCCAAG
                             ttctgat  putative branch site (score: 3)
                                               ttttct  putative PPT
      tctttttat  TA-rich tract