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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGACACCGCAGCTCCCTCCGCGCCTCCTCCGCCGCAACTGGAGTGGAAATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgttggctttttgcggcgttggatccgccaattgttgcgtgaatttagggtttggttttgcgtagttttgatctgtttctggatcgattaggtttt...

Basic information

species Vitis vinifera
transcript Vv09s0002g02470.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 1
--GATGACACCGCAGCTCCCTCCGC-GCCTCCTCCGCCGCAACTGGAGTGGAAATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgttggctttttgcggcgttggatccgccaattgttgcgtgaatttagggtttggttttgcgtagttttgatctgtttctggatcgattaggtttt--
  |  |    ||  |    | | || |   | |||| ||    ||||||||   ||| | ||||| ||||||||||| |||||||| ||||| |||||||||||||  |||| |||    |  | | |    ||  |    | ||  |  |             |  ||  |  | ||  | |    |  |||    || ||   
GGGGCGGGCTCGTCGTCGGCGCAGCAGGGGCATCCGACGA---TGGAGTGGCGGTTCGCGCAGGTCTTCGGCGAGCGCGCGGCCGGGGAGGACGTGCAGGAAGgtac-gttgccttgccaccccctcgcccgcgagaggcctggcccgt-tgccccccaccccctcccgccgcctcgagatctggtcgattcgtgcggggttgtg

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 1
GATGACACCGCAGCTCCCTCCGCGCCTCCTCCGCCGCAACTGGAGTGGAAATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgta-ttgttggct------ttttgcggcgttggatccgccaattgttgcgtg-aatttagggtttggttttgcgtagttttgatctgtttctggatcgattaggtttt
|||||   ||  ||  |  | |||  ||| |||| ||  ||||||||||||||||| ||||| ||||| || ||  |||| || |||||||| |||||||||| ||||| | |      || |  |  || ||||||     ||| || ||     |||||||||||||    |   ||| |||||||||| |     || | |||  
GATGAGGTCGTGGCAGCTCCGGCGAGTCCACCGCAGCCGCTGGAGTGGAAATTCTCGCAGGTTTTCGGGGAACGTACGGCGGGGGAGGAAGTTCAGGAAGgtaattgtttggtactacgttgtttgctgtcggatccagttgttgatgtgttcggattagggtttggttccatgc--tttcgatctgtttcgg-----atcatgttc-

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 1
GATGACACCGCAGCTCCCTCCGCGCCTCCTCCGCCGCAACTGGAGTGGAAATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgta-ttgttggcttt---ttgcggcgttggatccgccaattgttg-cgtgaatttagggtttggttttgcgtagttttgatctgtttctggatcgattaggtttt
|||||   ||  ||  |  | |||  ||| |||| ||  ||||||||||||||||| ||||| ||||| || ||  |||| || |||||||| |||||||||| ||||||    |   |||    || ||||||     ||| || | |    |||||||||||||   | | |||| |||||||||| |      ||  ||   
GATGAGGTCGTGGCAGCTCCGGCGGGTCCACCGCAGCCGCTGGAGTGGAAATTCTCGCAGGTTTTCGGGGAACGTACGGCGGGGGAGGAAGTTCAGGAAGgtaattgttgttcctacgttgttctgtcggatccagttgttgatgtctttggattagggtttggttc--ctttgtttcgatctgtttcggatcatgttctgt---

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 1
GATGACACCGCAGCTCCCTCCGCGCCTCCTCCGCCGCAACTGGAGTGGAAATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgta-ttgttggctttttgcggcgttggatccgccaattgttgcgtgaatttagggtttggttttgcgt--agttttgatctgtttctggatcgattaggtttt-
| ||    ||  ||  |  |      |||||| |||    | ||||||| |||||||||||| ||||| |||||  | ||||| || ||||| |||||||||| || ||| ||   || |   |   |   |  |  | |     || |||||   ||  |||| | |  || |  |   ||| | ||    || || |  || 
GGTGGTGACGATGCCGCTACTAGTGGTCCTCCTCCGTCTTTAGAGTGGAGATTCTCTCAGGTCTTCGGTGAGCGAACCGCCGGAGAAGAAGTTCAGGAAGgtaattattgcctacgtgtgttat--aaattgtgagatatattcggagtttagctcttcttttttcttttagatccggagtgtatttgag--gactaagggttt

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 5'ss of exon 1
GATGACACCGCAGCTCCCTCCGCGCCTCCTCCGCCGCAACTGGAGTGGAAATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgt-tggctttttgcggcgttggatccgccaat---tgttgcgtgaatttagggtttggttttgcgtagt-tttgatctgtttctggatcgattaggtttt
|  | | | |  ||  | ||  |  | ||   |||    |||||||||||||| |||||||| ||||| ||||| ||   ||| || |||||||| ||||||||  | ||| |    |  |||||||       | |   | |  |||||  | || |   |||  || | | | |||    ||||| |   |     ||     
GGGGCCCCGGATGCCACTTCTTCTGCGCCATTGCCTGCGCTGGAGTGGAAATTTTCTCAGGTTTTCGGGGAGCGTGCCATCGGGGAAGAAGTGCAAGAAGgtatgttatggatcgcagttgcgttggggggaagagtgtgtatcccgtgaggt-agtgcggggtggtgtggattatttcccttgtttttcagttctcgaga----

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S167_51V6.1 (Physcomitrella patens), 5'ss of exon 1
GATGACACCGCAGCTCCCTCCGCGCCTCCTCCGCCGCAACTGGAGTGGAAATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgtt--ggctttttgcggcgttggatccgccaattgttgcgtgaatttagggtttggttttgcgtagttttg-atctgtttctggatcgattaggtttt
       |  | | | |    ||  | ||   |||     |||||||||||||||| ||||| ||||||||||| ||   ||| ||||||||||| |||||||| |||  || |  | |    |||||          ||||  | |||   | | |   ||||| ||    || |     | |  ||  | ||||   |  |
CCCACTGCTACTGGTTCTGTTGCTGCGCCATTGCCCGCGTTGGAGTGGAAATTCTCGCAGGTTTTCGGCGAGCGTGCCATCGGAGAGGAAGTGCAAGAAGgtatggttctggatcgtcgta-tgttggtagtttaggatgttcggagaag--aagatcgtgttttccgcgagttagtgggggctggtgtctggattgtttcct

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|161716360|gb|FC066871.1|FC066871
EST:     ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAG                         TTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA
genomic: ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgttgg ... cattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA
EST: gi|161719206|gb|FC066075.1|FC066075
EST:     ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAG                         TTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA
genomic: ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgttgg ... cattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA