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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgcagacttctatacaggtgtaacagaaaactatgtgcactggtataatttgtgaaaacttctcttctgaccattttgagtctgcag

Basic information

species Vitis vinifera
transcript Vv18s0001g10680.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os11g40080.1 (Oryza sativa), 5'ss of exon 8
CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgcagacttctatacagg---------tgtaac-agaaaactatgtgcactggtataatttgtgaaaacttctcttctgaccat-tttgagtctgcag----------------------------
 ||||||||||||||||| ||||||||  | || || |||||| |||| ||||| |||||||| ||||| |  |||||||| || || || ||||| ||||||||      ||||  | | | |         |  | | |  ||| | | |  |   | |||||| |   |  |    |   ||| ||| || |||   |||                             
AAATCCATTCTATGCTGGATTTGGAAATAGAGATACAGATGAGCTTAGTTACCTCAAGGTTGGGATTCCTATGGGCAAAATTTTTATTATAAATCCCAAGgtaacagatc-acttagacagatggtcccttcctacatccaacaaagtttctctatctgcataattggatcaggcccagccagtgaacatattggagatggcatttagaaaatgtgtgtaaattttgtgcag

upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA17G36130.1 (Glycine max), 5'ss of exon 10
CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgcag-acttctatacaggtgtaacagaaaactatgtgcactggt-ataatttgtgaaaacttctcttctgaccattttgagtctgcag-------
 ||||| ||||||||||||||||||||  |||| || |||||  | || ||||||||||||||||| |||||||| |||||||||||||||||||| | ||||      || | ||  | |||  |  |  | |||| ||  || | || | ||| ||||  ||||||||| |||| |   || ||||| | ||        
GAATCCGTTCTATGCTGGTTTTGGAAATAGGGATACCGATGAAGTCAGTTACCTTAAGGTTGGAATCCCAAAAGGAAAAATATTCATCATTAATCCCAGGgtatgtattagtattttgaaacaaataaatgataaaagtacctgaattgtttatagtttgc-aaaacttctattctcat--ttctgagttttcacttttcag

upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA06G04230.1 (Glycine max), 5'ss of exon 15
CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgcagacttctatacaggtgtaacagaaaactatgtgc-----actggtataatttgtgaaaact-----tctcttctgaccattttgagtctgcag
|| ||||||||||||||||||||| ||  |||| ||||||||  | |||||||||||||||||||||||   ||| ||||| ||||| |||||||| | |||||  |  |  ||| | |  |   |||| |     ||  ||||       |  || ||| | ||||          |  |||| |   |||| |||  ||||
CAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACTGATGAAATCAGCTACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGGgtaaa-taaatcctttttttaaaaagtaaaaatttccttggtgctagaagttcctaaaatgtttgaagttcgtcaaacctttcttatt-ttttaagttcgcag

upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA04G04060.1 (Glycine max), 5'ss of exon 14
CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgcagacttctatacaggtgtaacagaaaactatgtgc-----actggtataatttgtgaaaacttct---cttctgaccattttgagtctgcag
|| ||||||||||||||||||||| ||  |||| || |||||  | |||||||||||||||||||||||   ||| ||||| ||||| |||||||| | |||||         |  | |  |   |||| |     ||   |||       |  || ||| | ||||          | | |     |||| |||  ||||
CAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACGGATGAAATCAGCTACCTTAAGGTTGGAATTCCCCTAGGAAAAATTTTCATTATTAATCCCAGGgtaaataaatccttcttttttaaaagtaaaaatttgcttcatgctagaagttcctaaaatgtttgaagttcgtcaaacctttcttatttttaagttcgcag

upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT5G42870.2 (Arabidopsis thaliana), 5'ss of exon 9
CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgta---acctgcagacttctatacaggtgtaacagaaaactatgtgcactggta-taatttgtgaaa--acttctcttctgaccattttgagtctgcag--
||| |||||||||||||||||||||||| | ||||| |||||| | ||||||||||| || ||||| ||   ||| || || ||||| ||||| || ||||||   |     | | ||  | |    | || || ||||  |   | | | | |  | |||||| ||  |  | |  ||| |   ||    | ||  |   
CAACCCATTCTATGCTGGTTTTGGAAACAGAGACACAGATGAGATAAGCTACCTTAAAGTCGGAATCCCCCGAGGAAAGATCTTCATTATTAACCCAAAGgtacacattcttaaaattgaaaatccat-tagcataaaaagagacgaattagcaacattttgtggaacaaactatgctctcaggcttaaaggactcaactg

upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S2_272V6.2 (Physcomitrella patens), 5'ss of exon 10
CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacc-tgcagacttctata-caggtgtaacagaaaactatgtgcactg-gtataatttgt-gaaaacttctcttctgaccattttgagtctgcag---
 || || ||||| ||||| ||||| || || || ||||||||  |||| || || || ||||| || || ||||||||||||||||| |||||||| |||||||   |   | | | | ||  |  || | |         | |||  |  ||| | | | | ||| |    ||   ||   ||  |   ||||      
TAACCCCTTCTACGCTGGATTTGGGAATCGTGATACTGATGAAATTAGTTATCTCAAAGTTGGTATCCCTAAAGGCAAAATATTCATTATTAATCCCAAGgtaattattttgccatatgtagtatttgaatctaggtggcttatgctttaagtagattatatagaagatgagtcgaatgtgtatccttgatctgttttgt

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|110363569|gb|EC927167.1|EC927167
EST:     ACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAG                         GGCGAGGTTGCTGTGAACCGCCGTGTGGACACAAAATCATATACTTCTCTT
genomic: ACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgca ... gagtctgcagGGCGAGGTTGCTGTGAACCGCCGTGTGGACACAAAATCATATACTTCTCTT
EST: gi|110363384|gb|EC926967.1|EC926967
EST:     ATTCCAAAAGGCAAAATATTCATCATTAATCCTAAG                         GGCGAGGTTGCTGTGAACCGCCGTGTGGACACAAAATCATATACTTCTCTT
genomic: ATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgca ... gagtctgcagGGCGAGGTTGCTGTGAACCGCCGTGTGGACACAAAATCATATACTTCTCTT