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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaatctttatctgtgcaactagagaactttaaattgtgacaccattcttaaatttattgaatttgtattctctttcatgtttttgagtgcattctgtttgattgttttgtgtagGTTATTAGAGGCCTTGTAATAGACAAAGAGAAAGGAAACTTGGTTAAGCCTGACAGATTTGGCTATGTAAAAAGGGCTATGCATGGTACAACAATGCTAA

Basic information

species Vitis vinifera
transcript Vv05s0020g00880.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G04580.1 (Glycine max), 3'ss of exon 4
gtgaaatctttatctgtgcaactagagaactttaaattgtgacaccattcttaaatttattgaatttgtattctctttca-tgtttttgagtgcattctgtttgattgttttgtgtagGTTATTAGAGGCCTTGTAATAGACAAAGAGAAAGGAAACTTGGTTAAGCCTGACAGATTTGGCTATGTAAAAAGGGCTATGCATGGTACAACAATGCTAA
                 | |  |        ||  |   |||   ||||    |||  ||   || | | ||   ||  | || | ||   |||||||  ||    |   ||||  |||| |||||||||||||| ||||||||||||||||| || ||||||||  ||||  ||||||| ||  ||||||| |||||||||||||| | |||| || 
-----------------gtagttctt---tcttgcaagctgaaggcatttggcaatccatattatctctttttggttgaactgatctt---tgcattccttta---taaattgttcagGTAATTAGAGGCCTTGTCATAGACAAAGAGAAAGGCAATTTGGTTAAAGCTGATCGATTTGGTTACATAAAAAGAGCTATGCATGGTACCAAAATGTTAT

upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 4
gtgaaatctttatctgtgcaactagagaact-ttaaattgtgacaccattcttaaatttat-tgaatttgtattctctttcatgtttttgagtgcattctgtttgattgttttgtgtagGTTATTAGAGGCCTTGTAATAGACAAAGAGAAAGGAAACTTGGTTAAGCCTGACAGATTTGGCTATGTAAAAAGGGCTATGCATGGTACAACAATGCTAA
                      |||    || ||  |   |||   ||||    |||  || | |     | ||   |  | || | ||   |||||||  ||    |   ||||  |||| |||||||||||||| ||||||||||||||||| || ||||||||  ||||  ||||||| ||  ||||||| ||||||||||| || | |||| || 
---------------------gtagttctctcttgcaagctgaaggcatttggcaatccatattatccctttttgggtgacctgatctt---tgcattccttta---taaattgttcagGTAATTAGAGGCCTTGTCATAGACAAAGAGAAAGGCAATTTGGTTAAAGCTGATCGATTTGGTTACATAAAAAGAGCTATGCATGGCACCAAAATGTTAT
















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|122690628|gb|EC955261.1|EC955261
EST:     TAAGGAACATGGGGTTTCCTGTGGATGGACTTGCATTTGACCCAAACTTG                         GTTATTAGAGGCCTTGTAATAGACAAAGAGAAAGGAAACTTGGTTAAGCCT
genomic: TAAGGAACATGGGGTTTCCTGTGGATGGACTTGCATTTGACCCAAACTTGgtgaaatctt ... ttttgtgtagGTTATTAGAGGCCTTGTAATAGACAAAGAGAAAGGAAACTTGGTTAAGCCT
EST: gi|352763403|gb|FQ471715.1|FQ471715
EST:     AAGGAACATGGGGTTTCCTGTGGATGGACTTTGCATT-GACCCCAACTTG                         GTTATTAAAGGCCT
genomic: AAGGAACATGGGGTTTCCTGTGGATGGACTT-GCATTTGACCCAAACTTGgtgaaatctt ... ttttgtgtagGTTATTAGAGGCCT
EST: gi|352772410|gb|FQ469935.1|FQ469935
EST:     TAAGGAACATGGGGTTTCCTGTGGATGGACTTGCATTTGACCCAAACTTG                         GTTATTAGAGGCCTTGTAATAGACCAAGAGAAAAGAAACTTGCTTAAGCCT
genomic: TAAGGAACATGGGGTTTCCTGTGGATGGACTTGCATTTGACCCAAACTTGgtgaaatctt ... ttttgtgtagGTTATTAGAGGCCTTGTAATAGACAAAGAGAAAGGAAACTTGGTTAAGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttgtattctctttcatgtttttgagtgcattctgtttgattgttttgtgtagGTTATTAGAGGCCTTGTAATAGACAAAGAGAAAGGAAACTTGGTTAAGCCTGACAGATTTGGCTATGTAAAAAGGGCTATGCATGGTACAACAATGCTAA
                                    gtttgat  putative branch site (score: 5)
                                          ttgtttt  CT-rich tract
                 atgttttt  TA-rich tract