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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAGgttggctttcttttctaaagctcacattcttctaataagtttgtgtgagtgcatgtgtgtccatatgcatgcatgtgtatgtatatatgtatgtaagtta...

Basic information

species Vitis vinifera
transcript Vv01s0011g04370.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 5'ss of exon 4
GGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAGgttggctttcttttctaaagctcacattcttctaataagtttgtgtgagtgcatgtgtgtccatatgcatgcatgtgtatgtatatatgtatgtaagtta-
 ||||||||||| |||||||| || |||||||| || || || |||||||| ||  |||||||||||  ||| || |||||||||||||||||  |      ||| |     | ||  |     || |  ||| | |  |  |||   | | |||        | |    || ||   | ||  |   ||| 
TGTACTTATTAGACCACATCCTGCCATTTGGCGGCTGGTCCACGGGATGGCAGTTGTTTACCTTGTTGCTCTAACTTTTTTGCTTTTCCAGgtaagtacagctttttcttatt-actcttgctcaacacatttttattggatcattgatattcatggattattaaggcattgcattcttttactttttttat

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G110834_T02 (Zea mays), 5'ss of exon 4
GGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAGgttggctttcttttctaaagctcacattcttctaataagtttgtgtgagtgcatgtg-tgtccatatgcatgcatgtgtatgtatat-atgtatgtaagtta---------
 ||||| ||||| |||||||| || |||||| | ||||||||||||||||| ||  ||||||||||    ||||| || ||||||||||||||        ||||          |||| || |||  || || | | | ||||||   |||| |||    ||| |     | ||| | || ||| | |   |         
TGTACTCATTAGACCACATCCTGCCATTTGGAGGCTAGTTCATGGGATGGCAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTCCAGgtgaatgcagttttt---------cattattttaa--agattatttcactgcatgaactgtcaatagttttgcgttctattctattttatttatattaagcaaatctttat

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA10G41430.1 (Glycine max), 5'ss of exon 5
GGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAGgttggctttcttttctaaagctcac-attcttctaat---aagtttgtgtgagtgcat-gtgtgtccatatgcatgcatgtgtatgtatatatgtatgtaagtta
||| ||||||||||||||||| |||||||||||  | |||||||| ||||| ||  |||||||||||   ||||||||||||||||| ||||||||  | | | ||| ||  | || |||||| |  |   ||||||  ||   |   |   | ||  || |  |    | |||| || ||| |    | |     
GGTTCTTATTAGGCCACATCCTGCAATTTGGCGCTTGGTTCATGGAATGGCTGTTGTTTACCTTGTTGCCCTCACATTTTTGCTTTTTCAGgttggtctccatgtctcaatttaactattctttttgtgtaaagtttaagtagttttgtcaagcgtaaattt-tacatttttgta-gtgtattttgtagcaga---

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA20G25830.2 (Glycine max), 5'ss of exon 7
GGTACTTATTAGGCCACATCCAGCAATTTGGCGACTAGTTCATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAGgttggctttcttttctaaagctcac-attcttctaat---aagtttgtgtgagtgcatgtgtgtccatatgcatgcatgtgtatgtatatatgtatgtaagtta
||| ||||||||||||||||| |||||||||||  | |||||||| ||||| ||  | ||||| |||   ||||||||||||||||| |||||||| || | | ||| ||  |  | ||||||    |   ||||||  || | |   |     |  |  |       | |||| || ||| | |     ||   
GGTTCTTATTAGGCCACATCCTGCAATTTGGCGCTTGGTTCATGGCATGGCTGTTGTATACCTAGTTGCCCTCACATTTTTGCTTTTTCAGgttggtttccatgtctcaatttatctattctttgtgtgtaaagtttaagtaattttgtcaagcttaaactttgcatttttgta-gtgtatttttgctctag---

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|349828936|gb|FQ419269.1|FQ419269
EST:     ATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG                         AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGT
genomic: ATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAGgttggctttc ... tcatttccagAAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGT
EST: gi|351026887|gb|FQ436540.1|FQ436540
EST:     ATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAG                         AAACATGATGATGCTCAGG-AATTCATGAAGTTTTCTCCATCCTGATCTTG
genomic: ATGGGATGGCGGTCATTTACCTTGTTTGTCTCACATTTTTGCTTTTCCAGgttggctttc ... tcatttccagAAACGTGATGATGCTC-GGCAATTCATGAAGTTT-CTCCATCCTGATCTTG