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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGATACTTTTTTGGGTCAGCGCCGGACAACAGACCATGAAGCAATGGCAAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtag

Basic information

species Vitis vinifera
transcript Vv16s0098g01260.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os06g50050.2 (Oryza sativa), 5'ss of exon 3
GTTGATACTTTTTTGGGTCAGCGCCGGACAACAGACCATGAAGCAATGGCAAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattctatacattaagcaactata-atccttgtggttc-tttctttttcacaaatgaa-gtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtag
|| |||| ||| ||||| ||||| |||||||| ||||| ||||| ||| | || ||||| |||||||||||| |  | |||||||| || |||||||||||| ||||  |  |    |    |  |||| ||     |  | | | ||    |  | | | |   ||||  | |    | | ||||   |   ||||                                                                                   
GTCGATAGTTTCTTGGGCCAGCGACGGACAACGGACCACGAAGCTATGACTAATATGAAGACTGAGTTCATGTCCCTCTGGGATGGCTTCACCACTGATCgtaagtacacactctgcttcaaacttatacatgaacatattccatgtccaaattgctagtaactatgcaaatatcctattctctttattatgtaatgata--------------------------------------------------------------------------------

upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA14G26420.1 (Glycine max), 5'ss of exon 3
GTTGATACTTTTTTGGGTCAGCGCCGGACAACAGACCATGAAGCAATGGCAAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtag
||||| |  |||||||||||||| || |||||||| ||||| ||  ||  ||||||||||||||| |||||||||||||||||||| ||||| ||||||||| ||| ||  |    |||   |  | |    ||| ||   | |  || || |  |||    ||||   |    |       | ||  |   ||  |  |  | |||   |||||||  |||| |||  ||||   ||  ||    |||| |   |||||  |||       |||||
GTTGACAGCTTTTTGGGTCAGCGTCGTACAACAGATCATGAGGCTTTGTTAAACATGAAAACTGAATTCATGGCTTTATGGGATGGCTTTACTACTGATCgtaagttttaaacgtgttatatacttct----cttctgaggcataattattta-gaatatgctgcaagataccgtgaattgatgcagctc--tgtttagcatt-attctctgtacttattagtcaaa--agtttttaattgtgatgacttat---aatttactgtg----tgtgtag

upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA04G41040.1 (Glycine max), 5'ss of exon 3
GTTGATACTTTTTTGGGTCAGCGCCGGACAACAGACCATGAAGCAATGGCAAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaacta-gttggaaaaggttt-ccacttgtgacaatttgatgt---tgttt-catgtag
|| || | ||||||||||||||| || |||||||| || || ||  ||  ||||||||||||||| ||||||||| | |||||||| ||||| || |||||| ||| ||  |    |||    | |||  |  ||    | | |   | |||| |||| |  ||||  |          |  ||   ||| |    | |   || | || |    ||   | || |  ||  || ||  || |||     ||| |   | ||  |||   |||||   |||||
GTAGACAGTTTTTTGGGTCAGCGTCGTACAACAGATCacgaggctttgttaaacatgaaaactgaattcatggctctgtgggatggatttacaacagatcgtaagt-ttaaaccagttatcatattattttattt-cattgcataaatattca-aaataagttgcaaataagataatgacaattttgatagaga--tttggttggtaacataatgttttcaatttatttatatttgagtagatttgttgattggggtgacttattgtgtgtgtttgtgtgtag

upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G13800.1 (Glycine max), 5'ss of exon 3
GTTGATACTTTTTTGGGTCAGCGCCGGACAACAGACCATGAAGCAATGGCAAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaacta-gttggaaaaggttt-ccacttgtgacaatttgatgttgtttcatgtag
|| || | ||||||||||||||| ||   |||||| || || || |||  ||||||||||||||| ||||||||| | |||||||| ||||| || |||||| ||| |   |        |  |  ||| |   | | |||   |   | |   |||| |  ||||  |          |  ||   ||| |    | |   || | || |    ||   | || |  ||  || ||  || |||     ||| |   | ||  |||       |||||
GTAGACAGTTTTTTGGGTCAGCGTCGTGGAACAGATCACGAGGCTATGTTAAACATGAAAACTGAATTCATGGCTCTGTGGGATGGATTTACAACAGATCgtaagtttaaca--------gttatcatattttattttgttgcataaatattgaaaataagttgcaaataagataatgacaattttgatagaga--tttagttggtaacataatgttctcaatttatttatatttgagtagatttgttgattggggtgacttattgtg----tgtgtag

upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ24487 (Selaginella moellendorffii), 5'ss of exon 3
GTTGATACTTTTTTGGGTCAGCGCCGGACAACAGACCATGAAGCAATGGCAAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtag
|| || |  || ||||| |  ||  |    ||    || ||||  ||| |  | ||||| |||||||| |||||| |||||||||| || |||||||||||| |||   ||  | | |       | |     || ||| | |||  |   ||| |    | | ||                                                                                                               
GTGGACAGCTTCTTGGGACGTCGAGGAGTTACCAGTCACGAAGTCATGACTCAAATGAAGACTGAGTTTATGGCTCTATGGGATGGCTTGACCACTGATCgtaagttcacttcaaaatccttttttctcgatgttttggctttttgctgaccacgagcttaatccag--------------------------------------------------------------------------------------------------------------

upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ13213 (Selaginella moellendorffii), 5'ss of exon 3
GTTGATACTTTTTTGGGTCAGCGCCGGACAACAGACCATGAAGCAATGGCAAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtag
|| || |  || ||||| |  ||  |    ||    || ||||  ||| |  | ||||| |||||||| |||||| |||||||||| || |||||||||||| |||    |  || | ||    || |  ||    ||  | |    ||||  |  |  | | || |  |                                                                                                           
GTGGACAGCTTCTTGGGACGTCGAGGAGTTACCAGTCACGAAGTCATGACTCAAATGAAGACTGAGTTTATGGCTCTATGGGATGGCTTGACCACTGATCgtaagt----tccacttcaaaatccttttttctcgatg--tttgggcttttggctgacaacgagcttaatccag-------------------------------------------------------------------------------------------------------

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|349814709|gb|FQ409932.1|FQ409932
EST:     AAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATC                         AGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTG
genomic: AAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattc ... tttcatgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTG