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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGTATCACTGGATATGCTTGGCCGCATTTTTAATGGTTCTGGAAAACCCATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatgctaggaagataatgatttattaccaaaagctagggaaaagattttatgttatctggatatataataaactcttccttgtctttcatag

Basic information

species Vitis vinifera
transcript Vv18s0001g01020.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 5'ss of exon 6
CCTGTATCACTGGATATGCTTGGCCGCATTTTTAATGGTTCTGGAAAACCCATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatgctaggaagataatgatttattaccaaaagctagggaaaag---attttatgttatctggatatataat----aaactcttccttgtctttc-atag-------------------------------
||||| ||||| ||||||||||| |||||||||||||| |||||||||||||||||||||||||| || ||| |||||||||| ||| | ||||| |||||| |||  |      |      ||   |  ||   |||   |  |  |||   || || | ||||| | |   ||  |    |||||  |  || ||||   |||                                
CCTGTCTCACTTGATATGCTTGGGCGCATTTTTAATGGATCTGGAAAACCCATTGATAATGGCCCACCTATTTTGCCAGAGGCCTACTTGGATATCTCTGgtaagtttttgctcaattcaggtgcactgctatggaaattcatagttaagtgcatgttcttttatcagtacggatggtggctaaacttatatttctcttctgataatattaataatgtcttccgatgtttattccag

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G094497_T02 (Zea mays), 5'ss of exon 5
CCTGTATCACTGGATATGCTTGGCCGCATTTTTAATGGTTCTGGAAAACCCATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatgctagg----aagataatgatttat--taccaaaagctagggaaaagattttatgttatctggatatataataaactc-ttccttgtctttcatag-------------------------------------------------
||||| ||||| ||||||||||| |||||||||||||||||||||||||| ||||| ||||||||||| ||  |||| || || ||| | ||||| |||||| ||||||    ||    |  ||  || | ||   |||  |  | || |   | | | |  ||     | | | |   |   | |  ||  |||  ||  ||                                                   
CCTGTCTCACTTGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTATTGACAATGGCCCCCCGATATTGCCCGAAGCCTACTTGGATATCTCTGgtaagtaatttctggttctagcatgctgctctacaatactcatggttaagtgcatgctgtcgtgcagagtaggttttagacgtattggttaattgagttaaatcaatgagtccatctttaaattttgtaaatatgtactctgattttgctgcag

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 6
CCTGTATCACTGGATATGCTTGGCCGCATTTTTAATGGTTCTGGAAAACCCATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatgctaggaagataatgatttattaccaaaagctagggaaaag---attttatg----ttatctggatatataataaactcttccttgtctttcatag-----------------------------------------------------
||||| ||||| ||||||||||| |||||||||||||||||||||||||| ||||| ||||||||||| ||  | || || || ||| | ||||| |||||| ||||||    ||   |       |  |   |||     | ||  |||   || || ||     ||   || | || ||  |    ||  ||  |     ||                                                      
CCTGTCTCACTCGATATGCTTGGGCGCATTTTTAATGGTTCTGGAAAACCTATTGACAATGGCCCCCCGATATTACCTGAAGCCTACTTGGATATCTCTGgtaagtaatttctggttcaagcacgctgctctacaatgctcatggtgaagtgcatgttgtggagagtagtaggttttagaagtattgattgattagcggcattaaatcaatgagtccatctttaaagtttgtaatcatgtactctgattttgttgcag

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 5'ss of exon 6
CCTGTATCACTGGATATGCTTGGCCGCATTTTTAATGGTTCTGGAAAACCCATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatgctaggaagataatgatttattaccaaaagctagggaaaagattttatgttatctggatatataataaactcttccttgtctttcatag
||||| ||| |||| |||||||||||||| ||||| || || ||||| || |||||||||||||| || ||| |||||||||| ||||| |||||||||||| || | ||   |    | | | | || |   |  |||  | |||||| || |  | | |  ||  |   |    || | ||               
CCTGTGTCATTGGACATGCTTGGCCGCATATTTAACGGCTCGGGAAAGCCAATTGATAATGGCCCTCCTATTTTGCCAGAGGCATACCTTGATATTTCTGgtgagcattgactgcctca-agtcaattgtactctgaagagaaggaaaaaatctgttttaaattgtttcggtcgataatttttatag-----------

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 5'ss of exon 6
CCTGTATCACTGGATATGCTTGGCCGCATTTTTAATGGTTCTGGAAAACCCATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatgctaggaagataatgatttattaccaaaagctagggaaaagattttatgttatctggatatataataaactcttccttgtctttcatag
||||||||| |||| |||||||| ||||| ||||| ||||| ||||| || |||||||||||||| || ||||||||||| || ||||| |||||||| ||| || ||  ||| || || ||| |||    |   | | ||  | |  |   |||   || |    | | ||   ||    |||||| | ||  ||||
CCTGTATCATTGGACATGCTTGGGCGCATATTTAACGGTTCAGGAAAGCCGATTGATAATGGCCCTCCTATTCTGCCAGAAGCATACCTTGATATTTCAGgtgagcaa--ctaagaggacaattattc--cattgagatctctgaagcaatgtttcatttgttcttaaaaatgtcaa----ttccttatattg-atag

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|110706083|gb|EE083673.1|EE083673
EST:     CATTGATAATGGCCCTCCAATTCTCCCAGAGGCTTACCTAGATATTTCTG                         GAAGTTCTATCAACCCCAGTGAGAGAACCTATCCTGAAGAGATGATACAAA
genomic: CATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatg ... tctttcatagGAAGTTCTATCAACCCCAGTGAGAGAACCTATCCTGAAGAGATGATACAAA
EST: gi|161715538|gb|FC069467.1|FC069467
EST:     CATTGATAATGGCCCTCCAATTCTCCCAGAGGCTTACCTAGATATTTCTG                         GAAGTTCTATCAACCCCAGTGAGAGAACCTATCCTGAAGAGATGATACAAA
genomic: CATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatg ... tctttcatagGAAGTTCTATCAACCCCAGTGAGAGAACCTATCCTGAAGAGATGATACAAA
EST: gi|161717869|gb|FC068184.1|FC068184
EST:     CATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTG                         GAAGTTCTATCAACCCCAGTGAGAGAACCTATCCTGAAGAGATGATACAAA
genomic: CATTGATAATGGCCCCCCAATTCTGCCAGAGGCTTACCTAGATATTTCTGgtcagtaatg ... tctttcatagGAAGTTCTATCAACCCCAGTGAGAGAACCTATCCTGAAGAGATGATACAAA