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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgattctagcctctgtggtcttaatataaatgtgtgtgctgtgtgactgtgtaagtgaatgttttttgattgttgggggtttgaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGAGTGGGATCGTCGCCAGAAACTTTACAGCCTTCTCATGCCAGTGATGAAC

Basic information

species Vitis vinifera
transcript Vv07s0129g00660.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0129g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G39780.1 (Glycine max), 3'ss of exon 1
gtctgattc--tagcctctgtggtct-taatataaatgtgtgtgctgtgtgactgtgtaagtgaatgttttttgattgttgggggtttgaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGAGTGGGATCGTCGCCAGAAACTTTACAGCCTTCTCATGCCAGTGATGAAC
||  ||||   ||   | |  ||  | || ||| ||||  ||| || |||     | | | |||  ||  ||  ||   ||     || ||  | ||||||||| || |||||||| ||||| ||| | |||||||| ||||||||||||  ||| ||||| |||  ||| |||||||| |||||||| |||||||||
gtacgatttcttaatatttcaggcgtatagtatgaatgaatgtcctttgta----ttttactgatcgtgcttgaatgaatgaa---ttaaaattacagTTCTGGAACATCTGCTGGCGAGAGAAAGTTGATGCCAACAATTCATGAAGAGATGGACCGTCGTCAGTTACTGTACAGCCTGCTCATGCCTGTGATGAAC

upper sequence: Vv07s0129g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G05510.1 (Glycine max), 3'ss of exon 1
-------------------------------------gtctgattctagcctctgtggtcttaata-taaatgtgtgtgctgtgtgactgtgtaagtgaatgttttttgattgt---tggg-ggtttgaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGAGTGGGATCGTCGCCAGAAACTTTACAGCCTTCTCATGCCAGTGATGAAC
                                      | | |  |     | || | |  || || | ||| | | |  | | | |   |||   |     ||| | ||| ||   ||   |  || ||  | ||||||||| || ||||| || ||||| ||| | |||||||| |||||||||||   ||| ||||| |||  ||| |||||||| |||||||| |||||||||
gtacaattaattttcgccggttaattaattaattaatatttcaggcgtatttatgagttactactaattaatatttatcatatattagaatgtgttttgtattttatggatggtgcttgaatgaattaaaattacagTTCTGGAACATCTGCCGGCGAGAGAAAGTTGATGCCAACCATTCATGAAGAAATGGACCGTCGTCAGTTACTGTACAGCCTGCTCATGCCTGTGATGAAC

upper sequence: Vv07s0129g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G18080.1 (Glycine max), 3'ss of exon 1
gtctgattc---tagcctctgtggt---cttaatataaatgtgtgtgc-tgtgtgactgtgtaagtgaatgttttttgattgttgggggtttgaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGAGTGGGATCGTCGCCAGAAACTTTACAGCCTTCTCATGCCAGTGATGAAC
 |  ||||    ||   ||| |  |     |  |||| || | | |   | |   | ||| | | |  ||||   || | |  |     ||  || || ||||||||| || |||||||| ||||| ||  | |||||||| |||| | |||||  ||| ||||| ||   ||||||||||||||| ||||| |||||||||
atgggatttatataatttctttaattagtctggtatatatttttataaatataataatgtttgaatagatgtgaattaactagttaccctt--aaacttcagTTCTGGAACATCTGCTGGGGAGAGAAAATTGATGCCAACAATTCGTCAAGAGATGGACCGTCGTCAATTACTTTACAGCCTTCTGATGCCTGTGATGAAC

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|161714657|gb|FC063892.1|FC063892
EST:     GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAG                         TTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA
genomic: GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAGgtctgattct ... gaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA
EST: gi|161713635|gb|FC062543.1|FC062543
EST:     GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAG                         TTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA
genomic: GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAGgtctgattct ... gaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA
EST: gi|161705588|gb|FC055767.1|FC055767
EST:     GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAG                         TTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA
genomic: GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAGgtctgattct ... gaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA
EST: gi|161715493|gb|FC069056.1|FC069056
EST:     GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAG                         TTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA
genomic: GATCGCTCTCCAATCTTGTCTTCTCACCCCATCTCTGAGTTCCTTACCAGgtctgattct ... gaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgtgtgactgtgtaagtgaatgttttttgattgttgggggtttgaatctgcagTTCTGGGACTTCTGCTGGTGAGAGGAAGCTTATGCCAACGATTCATGAAGAGTGGGATCGTCGCCAGAAACTTTACAGCCTTCTCATGCCAGTGATGAAC
                          ttttgat  putative branch site (score: 4)
                    aatgttttttgatt  TA-rich tract