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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtccagactgaaacttctgtggcgattctactacttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccag

Basic information

species Vitis vinifera
transcript Vv11s0016g04620.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 5'ss of exon 13
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgt-ctgtccagactgaaacttctgtggcgattcta---ctacttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttc---tttttccccag
 || ||  |||||||||| || || || ||  | || ||| |||| | |||||| ||||| |||||||||||||| || ||||||||||||||||||||||| |     |     ||||      |   || ||     |   || | | |  | |  || ||||      |   || |   |    |  |  |  |  |||     || |    |||
AACTGACTTGGGGTTGATATCACAATGTTGCTTAACCAAACATGTTTTCAAGATCAGCAAGCAGTACCTGGCAAATGTCTCACTTAAAATCAATGTTAAGgtaccaaatacttataaaccaagcagttaatacttagcttgtctacacaaatgtagtgtaatgcagtaagcagacttgcagcattgctaatgccttgcatttcggagttgtgatacag

upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: AC189879.3_FGT003 (Zea mays), 5'ss of exon 12
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtccagactgaaacttctgtggcgattctactacttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccag
 || ||| |||| ||||| || || || ||  | || ||  |||| |  ||||| ||||| |||||| ||||||| || ||||| ||||| |||||||||||   | |   ||     || |    | | |  | | |  || |  |  ||  | |  | || |      | |   ||||   |    ||    |                
AACTGATTTGGGATTGATATCACAATGTTGCTTAACCAAGCATGTTTTTAAGATCAGCAAACAGTACTTGGCAAATGTCTCACTGAAAATTAATGTTAAGgtacttaccaccttgg--ttatacatcaaatacagttcagaacagcaactttataagagaaatggctcgatattgactaatgataccatcaaattcag-------------

upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G079080_T02 (Zea mays), 5'ss of exon 13
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgt-ctgtccagactg---aaacttctgtggcgattctactacttaa--aaatagattgct-tattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccag
 || ||| |||||||||| || || || ||  | || ||  |||| |  ||||| ||||| |||||| ||||||| || ||||| ||||| ||||||||||| ||  |||   ||   | || |      |  ||       | ||  | |||  | ||| ||||    |  ||||| | ||  |||  ||                           
AACTGATTTGGGGTTGATATCACAATGTTGCTTAACCAAGCATGTTTTTAAGATCAGCAAGCAGTACTTGGCAAATGTCTCACTGAAAATTAATGTTAAGgtacttaccaccttgtttatacataaaatacagtttagaacatcaactatataagtggctctattattga-ctaatggtaccaataaaattcag------------------------

upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA06G23920.1 (Glycine max), 5'ss of exon 13
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtccagactgaaacttctgtggcgattctactacttaaaaata------gattgcttattgca--aagttaatgtttc----ctctaagcttggt------ttcgggatttttctttttccccag------------------------------
 ||||||||||||||||||||||| ||||| ||||| ||| |||| | |||||| |  |  ||||||||||| |||||| |||| ||||||||||| |||||||||    |   ||   ||  | |  ||| |||||   |||   |      |  | | |  | ||   |  || |||||     |||| | ||   |      || |  ||| || ||||                                     
AACAGATCTGGGGTTGATTTCTCAATGCTGCCTTACAAAACATGTATTCAAGATCAATAGACAGTACCTGGCTAACGTGGCACTAAAAATCAATGTCAAGgtctgttattatcaaatgctcaatcgt-attttactatccaaagtgacagggtggctacatgctacactgaaatattgttttcattctcttaactcattcttttatttgtaattattattttcatttcatttgcttaaataaaggatttattcttgtag

upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA04G21450.1 (Glycine max), 5'ss of exon 14
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtccagactgaaacttctgtggcgattctactacttaaaaata---gattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccag------------------------------------
 ||||||||||||||||||||||| ||||| ||||| ||| |||| | |||||| |  |  ||||||||||| || ||| |||| ||||||||||| |||||||||    | | ||   ||       | | ||| |   |||   |   | | |||   ||| |   |||| |||    | ||  |  |  |  | | |||  | |                                           
AACAGATCTGGGGTTGATTTCTCAATGCTGCCTTACAAAACATGTATTCAAGATCAATAGACAGTACCTGGCTAATGTGGCACTAAAAATCAATGTCAAGgtctgttattattaaatactcaaccat-actttacgatccaaagtgacacggtggctgcatgctacactaatattttacttcagtctcttaactcgttcttttatctgttattattttcatttgcttagataaaggatttattcatgtag

upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA05G08170.1 (Glycine max), 5'ss of exon 12
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtc-cagactg------aaacttctgtggcgattc-----tactacttaaaaataga------ttgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccag-------------------------
 ||||||||||||||||||||||||||||||||||| ||| | || | |||||| |  |  |||||  ||||||| ||| | || || ||||||||||||||||||     |||       ||| ||   ||   ||||     ||| |   |||   |||      || |||  | |  ||  |   |    ||||   ||  |  |    ||||| | |||  ||                           
AACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACAAAACACGTATTCAAGATCAATAGACAGTATTTGGCAAATGTGGCGCTGAAGATCAATGTTAAGgtctgttattaactatttacaaaatttaaatgatcattcaaaattacaatccaaagtaagagaatggttacttgctactcaggaatattcatttctatattttctcccaccttttttttatttttcccttaattttccttaaatatacttttag

upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA17G12850.1 (Glycine max), 5'ss of exon 13
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtcc-------------agactgaaact-tctgtggcgattctactacttaaaaatagattgcttattgcaaagtt---aatgtttcctctaagcttggtttcgggatttttctttttccccag----------------------------------
 || |||||||||||||||||||||||||||||||| ||| | || | |||||| |  |  |||||  ||||||| ||| |||| || |||||||| |||||||||               | | | ||| | ||| |    |||  | | |  |  || ||| || |||      | |    ||| ||   |   |  |      |||  ||  | | |||   ||                                   
AACCGATCTGGGGTTGATTTCTCAGTGCTGTCTTACAAAACACGTATTCAAGATCAATAGGCAGTATTTGGCAAATGTGGCACTAAAGATCAATGTCAAGgtctgttattatcttataataaaatttaaattatctatcaaaattacattccaaagtaagagagtggttacctgctactcaggaatattcatttctacatattcgccggccttaatttattttttcatttttcacttaatatttccttaaatatacttttag

upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: PP1S28_182V6.1 (Physcomitrella patens), 5'ss of exon 12
CACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtc-tgtccagac------tgaaacttctgtg-gcgattctactacttaaaaatagattgcttattgcaaagtta--------atgtttcctctaagcttggttt-cgggatttttctttttccccag-------------------------
 || |  |||||  || |||||||||| ||| | || ||  |||| | |||||| ||||| |||||||||||||||||| | || ||||| ||||| |||||  |||||| |       |  |   ||||||  |   |  |||| ||   || |  || ||| |||||   ||         ||| || | | ||  | ||||| |   |  |   ||||| |  |                          
GACTGTACTGGGTGTGGTTTCTCAGTGTTGTTTGACCAAGCATGTTTTCAAGATGAGCAAGCAGTACCTGGCAAACGTGGCTCTCAAAATTAATGTCAAGgtagtgtccaaatgacatgtccaggctctgtgtacttctacactaattgctaaaactttacttgttgcatcattgcatatgttatgattgcgcaaatgtgggtttaccaaaaatagatttttacttatttttgtgcgactgttcgctgtacag

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|349828457|gb|FQ417199.1|FQ417199
EST:     AGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAG                         ATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCT
genomic: AGATTAGCAACCAGTACCTGGCAAACGTGTCACTTAAAATCAATGTTAAGgtctgtccag ... ttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCT