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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTCATAAGCCAAGGAAACGAATTTTCATATTACATGATGATATGCTCAAGTTTTATTCTCAATAAgtgagaacttcatggcgacctctagttttgccacctctatgcatatttctacctgtacacaagaatttatttctccatactcaggctttgttatccttacatgcccttctttgggtttacttatttttaactag

Basic information

species Vitis vinifera
transcript Vv18s0041g00100.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0041g00100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os05g43560.1 (Oryza sativa), 5'ss of exon 11
GTTTCATAAGCCAAGGAAACGAATTTTCATATTACATGATGATATGCTCAAGTTTTATTCTCAATAAgtgagaacttcatggcgacctctagttttgccacctctatgcatatttctacctgtacacaagaatttatttctccatactcaggctttgttatccttacatgcccttctttgggtttacttatttttaactag
||||  | ||||| |||||||| || || |||||||||||||| || |||||||| ||||| ||  |||  |    |||        ||||            |||| ||||||| |   | || | || ||  ||   |   | | |      |||||  | | |||      | |||||      | || ||| |  ||
GTTTTGTGAGCCAGGGAAACGAGTTCTCGTATTACATGATGATTTGTTCAAGTTTCATTCTAAACCAgtagg----tcaa-------tctaag----------ctatacatattttt---tttaaaaaaaaaactagcaccttacattatcaagttgtt--catcacacaataatatttgg------tcatgttttatcag

upper sequence: Vv18s0041g00100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA13G10730.1 (Glycine max), 5'ss of exon 13
GTTTCATAAGCCAAGGAAACGAATTTTCATATTACATGATGATATGCTCAAGTTTTATTCTCAATAAgtgagaacttcatggcgacctctagttttgccacctctatgcatatttctacctgtacacaagaatttatttctccatactcaggctttgttatccttacatgcccttctttgggtttacttatttttaactag----------------------
| || || || || ||||| ||||||||||| |||||||||||||||||||| |||||||| ||  ||| ||||  | | ||  | ||||  |  ||       | |   | || | |    |||       |||     ||   |        ||| | | || |  |     |||||  | ||  || || | ||  |                       
GATTTATCAGTCAGGGAAATGAATTTTCATACTACATGATGATATGCTCAAGCTTTATTCTTAACCAgtaagaa--taagggttatctctt-tcatgttgatcttgttagtgttacaatgattacttgtttgttttgaagtcacaaagtgttgattgctgttctgattttttggtctttttgctt-tttgttctcaatcaattggcttgatggaacatttaag

upper sequence: Vv18s0041g00100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA20G16030.1 (Glycine max), 5'ss of exon 11
GTTTCATAAGCCAAGGAAACGAATTTTCATATTACATGATGATATGCTCAAGTTTTATTCTCAATAAgtgagaacttcatggcgacctctagttttgccacctctatgcatatttctacctgtacacaagaatttatttctccatactcaggctttgttatccttacatgcccttctttgggtttacttatttttaactag------------------
| || || || || ||||| ||||||||||| ||||||||||||||||| || |||||||| ||  ||| |||  || | ||  | ||||   ||    | || | |  ||  | |  |   |||  |    |||       ||           |||| |  ||   ||  ||| | |   |||  |     |  | | |                  
GATTTATCAGTCAGGGAAATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCAgtaaga--ttaagggttatctctttcttgtttatct-tgttaatgctacagcaattacttatttgtttgaagtcacagtgatgattgctgttctgattttttggtcttttctctttttgttctcaatcgattggcttgatggaacatttaag

upper sequence: Vv18s0041g00100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S98_148V6.1 (Physcomitrella patens), 5'ss of exon 11
GTTTCATAAGCCAAGGAAACGAATTTTCATATTACATGATGATATGCTCAAGTTTTATTCTCAATAAgtgagaac-ttcatggcgacctct-agttttgccacctctatgcatatttctacctgtacacaagaatttatttctccatactcaggctttgttatccttacatgcccttctttgggtttacttatttttaactag
|||| ||    ||||||||||| || |||||||||||| | |||||||| || |||||||| ||  ||| ||    ||||        ||| | |||      |  | || ||||    | || |   ||   |  ||| | |  | | |  |  | || | |   ||                                   
GTTTTATCGCTCAAGGAAACGAGTTCTCATATTACATGCTTATATGCTCCAGCTTTATTCTAAACCAgtaagtctgttcacttttttttcttaatttcctttgcagtttggatatgcacatctctgttcatataaatatgtttttagaat--gcatctgcttttaatag----------------------------------

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|34549600|gb|CF517832.1|CF517832
EST:     AACGAATTTTCATATTACATGATGATATGCTCCAGTTTTATTCTCAATAA                         TGCTCAAACTGCTGAGGAGTGGACAATTTATCCTTGGATCCACAGCAATTG
genomic: AACGAATTTTCATATTACATGATGATATGCTCAAGTTTTATTCTCAATAAgtgagaactt ... ttttaactagTGCTCAAACTGCTGAGGAGTGGACAATTTATCCTTGGATCCACAGCAATTG