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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgcaaagccaggactttcacctctattagttcataagattcttctgcccttttgggcatgtgtgagctttttctcaaaatttggaatgatgtcag

Basic information

species Vitis vinifera
transcript Vv01s0011g03380.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g03380.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os08g33440.1 (Oryza sativa), 5'ss of exon 4
GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgcaaagccaggactttcacctctattagttcataagattcttctg-cccttttgggcatgtgtgagctttttctcaaaatttggaatgatgtcag
|||| || || ||||| || ||||| ||||||||||| || || |||||||| ||||| || ||||| |||||||| | |     |     |   |      ||  | |  || |||  | ||   | |||     | | ||  ||   | |   | | || |   ||  |||
GGACATTTACACTGTCAAACTTGGGTATGTTTGGTGTTGATAGATTTGATGCAATTCTTCCACCTGGCCAGgtgaggttctctttc-----tcctaatctgcttgatgctaaatattgatgtggttcctttactggtatatggcctaagtatttgagtgtgtatgaata-cag

upper sequence: Vv01s0011g03380.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G117786_T01 (Zea mays), 5'ss of exon 4
GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgcaaagccaggactttcacctctat-tagttcataagat-tcttctgcccttttgggcatgtgtgagctttttctcaaaatttggaatgatgtcag
|||| || || |||||||| ||||| ||||||||||||||  |||||||||| || || || ||||| |||||| | |  ||| ||    ||| |    | || ||     ||| || | | || ||| | ||     | || |   |||    |  | |  |           
GGACTTTTACACTGTCCAACTTGGGTATGTTTGGTGTAGATCGGTTTGATGCAATCCTTCCACCTGGCCAGgtgggct-taaatccttttcttcctagaccatgtaaactgtaaaatgtatgcttcccatatgtatgagggttaatatttgagtatcactgagtgcag------

upper sequence: Vv01s0011g03380.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G24830.2 (Glycine max), 5'ss of exon 4
GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgcaaag-ccaggactttcacctctattagttcataagattcttctgccc-ttttgggcatgtgtgagctttttctcaaaatttggaatgatgtcag----------
| || ||||| || ||||||||||| |||||||| || |||||||||||||| || || || || || ||||| |||    |   |  ||||||| |  |||  |  ||    ||||  |   || | || || |    | ||| | |||| ||      |  ||   || |            
GAACTTTCACGCTTTCCAATTTGGGTATGTTTGGAGTTGACAGGTTTGATGCCATACTTCCACCAGGCCAGgttagtgatgatttctgggactttgaagtct--tgatttgagagatgttgtggctcattgtgtggcaatttgaacgttttatctgggggttcaactttgccctttatttccag

upper sequence: Vv01s0011g03380.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G24830.1 (Glycine max), 5'ss of exon 3
-----------------------------GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgcaaag-ccaggactttcacctctattagttcataagattcttctgccc-ttttgggcatgtgtgagctttttctcaaaatttggaatgatgtcag----------
                             | || ||||| || ||||||||||| |||||||| || |||||||||||||| || || || || || ||||| |||    |   |  ||||||| |  |||  |  ||    ||||  |   || | || || |    | ||| | |||| ||      |  ||   || |            
TGACCCAAATTTAATTGTGCCTGCTACAGGAACTTTCACGCTTTCCAATTTGGGTATGTTTGGAGTTGACAGGTTTGATGCCATACTTCCACCAGGCCAGgttagtgatgatttctgggactttgaagtct--tgatttgagagatgttgtggctcattgtgtggcaatttgaacgttttatctgggggttcaactttgccctttatttccag

upper sequence: Vv01s0011g03380.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA01G20720.1 (Glycine max), 5'ss of exon 4
GGACCTTCACTCTGTCCAATTTGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttg----caaagccaggactttcacct---ctattagttcataagattcttctgcccttttgggcatgtgtgagctttttctcaaaatttggaatgatgtcag------------
| || ||||| || || |||||||| |||||||| || ||||||||||| || || || ||||| || |||||||||||    | ||   |  | ||  |  |   || ||  || |  |||||      |  ||||| |    | ||| ||||   |  |  | ||  | | | |               
GAACTTTCACACTTTCAAATTTGGGAATGTTTGGAGTTGACAGGTTTGACGCCATACTTCCTCCAGGCCAGgtgagttggtgaccaaatgaacaattgaattttgacttttgatttaatagattgaggctcagttttgtggcaatttgacctttgattttatttatgttaagcttttccattcatgtttag

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|29785993|gb|CB343386.2|CB343386
EST:     TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTTTGCCTCCTGGTCCG                         GGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA
genomic: TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgca ... atgatgtcagGGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA
EST: gi|110399056|gb|EC965543.1|EC965543
EST:     TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAG                         GGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA
genomic: TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgca ... atgatgtcagGGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA
EST: gi|26259444|gb|CA810507.1|CA810507
EST:     TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAG                         GGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA
genomic: TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgca ... atgatgtcagGGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA
EST: gi|77583069|gb|DV220571.1|DV220571
EST:     TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAG                         GGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA
genomic: TGGGCATGTTTGGTGTAGACAGGTTTGATGCTATTCTGCCTCCTGGTCAGgtgagttgca ... atgatgtcagGGGGCTATCATGGCCGTTGGAGCTTCAAAGCCTACTGTTGTCACTGATAAA