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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAATACATCTATCTGAGATTGGTTGAAGACATCATCTCAAATGGTGTTCAAAGGGATGATAGGACAGGGACTGGTACTTTATCAAAGTTTGGTTGCCAGgtactgctaatttcagataattgagagagttggtcatgttcctcttctgaatgtatgtttccattatatggttttatattcaactattgaccagtgtagtaatcaatttttattcacag

Basic information

species Vitis vinifera
transcript Vv03s0038g04500.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os12g26060.1 (Oryza sativa), 5'ss of exon 2
GGAATACATCTATCTGAGATTGGTTGAAGACATCATCTCAAATGGTGTTCAAAGGGATGATAGGACAGGGACTGGTACTTTATCAAAGTTTGGTTGCCAGgtactgctaatttcagataattgagagagttggtcatgttcctcttctgaatgtatgtttccattatatggttttatattcaactattgaccagtgtagtaatcaatttttattcacag
||| ||    ||||| |   | ||| |||| || ||   |||||||| | | |   |||| || ||||| || || ||  |||||||||||||||||||||||||  |    ||| ||  |||   || |||    || |||      |  | || ||    ||| | | ||||  |||                                        
GGAGTATCAATATCTCAATCTTGTTCAAGATATAATAAGAAATGGTGCTAAGAAAAATGACAGAACAGGAACAGGGACAGTATCAAAGTTTGGTTGCCAGgtact-ttctcatcatatttttgttggaattgtatttgatccgtggagggctataagt----atttttttgtttcttatcag-------------------------------------

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 2
GGAATACATCTATCTGAGATTGGTTGAAGACATCATCTCAAATGGTGTTCAAAGGGATGATAGGACAGGGACTGGTACTTTATCAAAGTTTGGTTGCCAGgtactgctaatttcagataattgagagagttggtcatgttcctcttctgaatgtatgtttccattatatggttttatattcaactattgaccagtgtagtaatcaatttttattcacag
||| ||  | ||||| |   ||||| ||||||||||  |  | |||      | |||||||||||||||||||||||| || ||||| |||||||||||||||  | |  |  |    ||||| || | |  |   || |    || |  |||     ||    | |||  ||  | |                                         
GGAGTATCTATATCTTAAGCTGGTTCAAGACATCATTGCTGAAGGTACAACTAAGGATGATAGGACAGGGACTGGTACCTTGTCAAAATTTGGTTGCCAGgtaacgttt-tgactttcaattgggatattaagggttgctatagtt-tatatgctgactttgtctctatatttccacag----------------------------------------

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA06G01280.1 (Glycine max), 5'ss of exon 3
GGAATACATCTATCTGAGATTGGTTGAAGACATCATCTCAAATGGTGTTCAAAGGGATGATAGGACAGGGACTGGTACTTTATCAAAGTTTGGTTGCCAGgta---ctgctaatttcagat--aattgagagagttggtcatgttcctcttctgaatgtatgtttccatt-atatggttttatattcaactattgaccagtgtagtaatcaatttttattcacag
||| ||  | ||||| |   ||||| | ||||||||  |  | |||      | || ||||||||||||||||||||| || ||||| |||||||||||||||    | | | |||||  |   ||    || |||| |   |||  | | |||| | | | | |  |||   |  |                                                
GGAGTATCTGTATCTTAAGCTGGTTCAGGACATCATTGCTGAAGGTACAACTAAGGGTGATAGGACAGGGACTGGTACCTTGTCAAAATTTGGTTGCCAGgtaacatttcaactttcaattgggatattaagggttgctgtagtttatatgctgactttgtctctatatttgcacag------------------------------------------------

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA12G04480.1 (Glycine max), 5'ss of exon 3
GGAATACATCTATCTGAGATTGGTTGAAGACATCATCTCAAATGGTGTTCAAAGGGATGATAGGACAGGGACTGGTACTTTATCAAAGTTTGGTTGCCAGgtactgctaatttcagataattgagagagttggtcatgttcctcttctgaatgtatgtttc-cattatatggttttatattcaactattgaccagtgtagtaatcaatttttattcacag
||| |  |  ||||| || |||||| |||| ||||| ||  | ||       | |||||||||||||||||||||||| || || || ||||| ||||||||| |  |    |  |    ||||  |||||| | ||| |       |  |||  | ||||    | |||  ||  | |                                         
GGAGTTTAAGTATCTTAGGTTGGTTCAAGAAATCATTTCTGAAGGCACAACTAAGGATGATAGGACAGGGACTGGTACCTTGTCGAAATTTGGCTGCCAGgtaatattttgattggtctgttgat-gagttgct-atgatt------tatatgcttatttcgtcctctataattccacag----------------------------------------

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT2G16370.1 (Arabidopsis thaliana), 5'ss of exon 3
GGAATACATCTATCTGAGATTGGTTGAAGACATCATCTCAAATGGTGTTCAAAGGGATGATAGGACAGGGACTGGTACTTTATCAAAGTTTGGTTGCCAGgtactgctaatttcagataattgagagagttggtcatgttcctcttctgaatgtatgtttccattatatggttttatattcaactattgaccagtgtagtaatcaatttttattcacag
||| |   | ||| |||   |||||||||| || ||||| |||||   |   | | |||||||||| ||||||||||| |||||||| ||||||||||||||  |   |||                  ||  | ||||      | |   | ||    |   ||| ||| | | | |||    |      |||                         
GGAGTTTCTGTATTTGAATATGGTTGAAGATATTATCTCTAATGGCAATGTGAAGAATGATAGGACCGGGACTGGTACATTATCAAAATTTGGTTGCCAGgtgatataaatcc--------------gtttctttatgtattctgtttatctctag---ttggttaaatgatctcacatttccttggaacacag-------------------------

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT4G34570.1 (Arabidopsis thaliana), 5'ss of exon 5
GGAATACATCTATCTGAGATTGGTTGAAGACATCATCTCAAATGGTGTTCAAAGGGATGATAGGACAGGGACTGGTACTTTATCAAAGTTTGGTTGCCAGgtactgctaatttcagataattgagagagttggtcatgttcctcttctgaatgtatgtttccattatatggttttatattcaactattgaccagtgtagtaatcaatttttattcacag
||||||  ||||  | |   ||||  |||| || |||||||||||      ||  || |||||||||||||||||||| ||||| || |||||||| |||||   | || |     |||||              ||||      ||||||||| |  |||       ||||||  |  ||||   || || | | |    |||  |||  || |||||
GGAATATCTCTACTTAAATCTGGTCAAAGAGATAATCTCAAATGGAAACTTAAAAGACGATAGGACAGGGACTGGTACATTATCTAAATTTGGTTGTCAGgtga-gttactacttcataat--------------atgta-----tctgaatgtcttgttc-------tggtttgcttatcaaaagttaacaaatttccatatc--tttggatccacag

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|110413975|gb|EC979795.1|EC979795
EST:     CAAAGTTTGGTTGCCAG                         ATGCGGTTTAATCTACGAAAAACTTTTCCGCTTCTTACAACTAAG
genomic: CAAAGTTTGGTTGCCAGgtactgctaa ... ttattcacagATGCGGTTTAATCTACGAAAAACTTTTCCGCTTCTTACAACTAAG