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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctttttgggccaatgcagaaattacaattttattatagaatttgagtctcttactggtttatttatttatttttttctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTCTACTTTGCAAAATTGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGA

Basic information

species Vitis vinifera
transcript Vv07s0129g01080.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0129g01080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G39720.1 (Glycine max), 3'ss of exon 4
gtgctttttgggccaatgcagaaattacaattttattatagaatttgagtctcttactggtttatttatttatttttttctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTCTACTTTGCAAAATTGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGA
||  ||||||       |  ||||  |  ||   || | | |||   ||| | || ||   |||       | ||     | |||||||| |||||||||||| |||| || |||||||||||||||||  |||| ||||||||||||||  |||| |||||||| ||  ||||||||  ||| ||||
gta-tttttgttttcccgtcgaaagaattatcaaatga-ataatggaagtatattgct--cttac------agttgaagttgatgcagATAACAGAGTTGAAGTTGTCGATTGATAGCCTTGAGAAGGAACGGGATTTCTACTTTGCAAAGCTGAGAGATATTGAGATACTGTGCCAGACTCCTGAGA

upper sequence: Vv07s0129g01080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G05560.1 (Glycine max), 3'ss of exon 4
gtgctttttgggccaatgcagaaattacaattttattatagaatttgagtctcttactggtttatttatttatttttttctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTCTACTTTGCAAAATTGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGA
||| ||||||   |||  || ||     |||| |   ||  |   |||   | ||| || | |     || | |||      |||||||| |||||||||||| |||| || |||||||||||||||||  | || |||||||| |||||  |||| |||||||| ||  ||||||||  ||| ||||
gtgttttttgtttcaagtcataag----aattattaaatgaataatgaaagtattattgctcttacagttgaattt-----gatgcagATAACAGAGTTGAAGTTGTCCATTGATAGCCTTGAGAAGGAACGAGATTTCTACTTCGCAAAGCTGAGAGATATTGAGATACTGTGCCAGACTCCTGAGA
















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|110732455|gb|EE107757.1|EE107757
EST:     TAAGGTGTCAAGACCAGGTTTCTAGTGGGGGGCCTGCTTATGATGAAAAG                         ATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGGAGAAAGAGAGGGACTT
genomic: TAAGGTGTCAAGACCAGGTT-CTAGTGGGGGGCCTGCTTATGATGAAAAGgtgctttttg ... tctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTG-AGAAGGAGAGGGACTT
EST: gi|34544613|gb|CF512845.1|CF512845
EST:     TTAAGGTGTCAAGACCAGGTTCTAGTGGGGGGCCTGCTTATGATGAAAAG                         ATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTC
genomic: TTAAGGTGTCAAGACCAGGTTCTAGTGGGGGGCCTGCTTATGATGAAAAGgtgctttttg ... tctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTC
EST: gi|110702076|gb|EE080376.1|EE080376
EST:     TTAAGGTGTCAAGACCAGGTTCTAGTGGGGGGCCTGCTTATGATGAAAAG                         ATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTC
genomic: TTAAGGTGTCAAGACCAGGTTCTAGTGGGGGGCCTGCTTATGATGAAAAGgtgctttttg ... tctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTC
EST: gi|33406833|gb|CF212460.1|CF212460
EST:     TTAAGGTGTCAAGACCAGGTTCTAGTGGGGGGCCTGCTTATGATGAAAAG                         ATCACAGAGTTGAAGCTGTCGATAGATAGCCTTGAGAAGGAGAGGGACTTC
genomic: TTAAGGTGTCAAGACCAGGTTCTAGTGGGGGGCCTGCTTATGATGAAAAGgtgctttttg ... tctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattatagaatttgagtctcttactggtttatttatttatttttttctaatgcagATCACAGAGTTGAAGCTGTCAATAGATAGCCTTGAGAAGGAGAGGGACTTCTACTTTGCAAAATTGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGA
                                            ttctaat  putative branch site (score: 2)
                           tttatttatttatttt  CT-rich tract
                    ttactggtttatttat  TA-rich tract