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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacag

Basic information

species Vitis vinifera
transcript Vv06s0004g04930.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g16690.1 (Oryza sativa), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgt---ttcaaatgttgcaaattgtgaatgcttgtgacag---
|||||||||||| ||||| |||||  ||||||| || ||| | ||||||||||| ||  | |||||||||||||||||||||||||||||||||||||| || ||| |  |  |  |   ||           |   ||  ||   |  |||| | |||||   ||   |   ||  |  |     |||||     ||   
GAAGATGATGCACAAGTACATAGGGGCAGATGTTACATCACTTGTGACACTTCCGGTCATCATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAGgtttgtactgttaaactcacatttagagcgcagtagcctgtgttcgtcttctc-atcctgtgcattggcagaatgttacgttcatttgcttagcgtagtat

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G114126_T01 (Zea mays), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgtataag----tttgatgtttatcttggtagattgtctct--agcctgtttcaaatgttgca-aattgtgaatgcttgtgacag
|||||||||||| ||||| ||||| |||||||| || ||| | ||||||||||||||  | ||||||||||||||||||||||||||||||||||| || || ||| | || |  |  | || ||     ||||  ||||   |||     |    ||  ||  ||| ||     |||    ||  |    |  | | | | 
GAAGATGATGCACAAGTACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCTGAGgtttgtactatgt--tccgaattagacttcttgagatttacactggccatctacaactgaaggatgtgtctgcaattgtttgatccttgtcgtctttaaaaa

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgta-taagtttgatgtttatcttggtagattgtc--tcta-gcctgtttcaaatgttgcaaattgtgaatgcttgtgacag--
|||||||||||| || || ||||| |||||||| || ||| | ||||||||||||||  | ||||||||||||||||||||||||||||||||||| || || ||| |  | || | |||  | | || ||  | |       || | || |  ||||   |||    |  |||    ||||||      |   ||| |  
GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttcttgagatttacactgcccatctacaactgaaggatgtgtctgcaattgtttg-attctcgacggct

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA15G04210.1 (Glycine max), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctc--tagcctgtttcaaatgttg--caaattgtgaat-gcttgtgacag
|||||||||||| || ||||| || |||||||| || |||||||| ||||| |||||| | |||||||| |||||||| |||||||||||||||||||| || ||  |       |||   |   | || | | |   ||| || ||||  |   | |  ||| |      |||    |  | ||||| | | |    ||
GAAGATGATGCACAAATATATTGGCTCAGATGTAACATCAATGGTAACACTACCAGTTATTATTTTTGAACCAATGACTATGCTTCAGAAAATGGCAGAGgtttgcacagctctattttattttttgtgttttctgctttgttaaattgctttatttgtttgtattggcacttgattgagctttgaattgttcgaactag

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA11G14770.1 (Glycine max), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatg-tgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacag
|||||||||||| |||||||| || || ||||| || |||||||||||||| |||||| | || ||||| |||||||| ||| |||||||||| || || ||||| |  | | ||||||    |   |||||| | | ||   |   ||||         || |||| || |  || |||  | ||||||  | ||
GAAGATGATGCAGAAGTATATTGGCTCGGATGTAACATCAATGGTGACACTACCAGTTATTATATTTGAACCAATGACTATGATTCAGAAAATTGCTGAGgtatgctaacttttagttttgccattgttgatgat-acctgaat---ttgta--------gtgtcaattgattgaatttgaaattgcttgaaatag

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA12G06690.1 (Glycine max), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatg-tgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacag
|||||||||||| |||||||| || || ||||| || |||||||||||| | || ||| | || ||||| |||||||| ||| |||||||||| || || ||  | |  |   ||||||    |   |||||| | | |||  |   | || || |   || || || |  || ||||||  | ||||||  | ||
GAAGATGATGCAGAAGTATATTGGCTCGGATGTAACATCAATGGTGACATTACCTGTTATTATATTTGAACCAATGACTATGATTCAGAAAATTGCTGAGgtcggcttactcttagttttgccattgttgatgat-accttaatctgtagtgtcaa--ttgattgaatt--tgaaaattgaaattgcttgaaatag

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G59420.1 (Arabidopsis thaliana), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacag
|||||||||||| || ||||||||||| ||| | || ||||||||||| ||||| ||| | || |||||||| ||||| ||||| ||||| ||||| || ||  |||  ||  |  |  |     |    ||||| |     |   |||| | | |  |||     ||  |   | |||  |||  || | ||||
GAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGCTCCAGAAGATGGCTGAGgttagtgttatacatctaattc---tcctgtgtttgtaagtatttgttgttttttgtgtgtactgtattataacatttgcaaat--ttctcacag

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S148_87V6.1 (Physcomitrella patens), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgcc-atctagtttgtataag-----------tttgatgtttatctt--ggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacag
||| |||||||| ||||| |||||||| ||  | || ||||||||||||||||||||  | || |||||||| ||||| | ||||||||| ||||| || |||| |    |  |  |||||    |           ||||   || |||||   ||| |   |   |   || |     |||||||||||| || || |         
GAAAATGATGCACAAGTACATAGGTTCTGACATTACTTCAATGGTGACACTTCCAGTCATCATATTTGAGCCCATGACTACGCTTCAGAAGATGGCTGAGgtatttttttactttttttgtgcgtggccgcaaaatatttggctttaatctttgagtacaaaatgattctgctatccgtgatgttgcaaattctgtatac---------

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ19778 (Selaginella moellendorffii), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacag
||| |||||||| |||||||| || || || ||||| || ||||||||||| |||||| ||||||||||||| ||||| ||||| || | |||||| || |||      | ||  ||         |||| |   | ||  ||| ||| | ||||                                        
GAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGCTCCAAAGAATGGCCGAGgtaaagaaaaactttttc-------cttgaggcaaagct--gtaaattctatctacag-------------------------------------

upper sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ08612 (Selaginella moellendorffii), 5'ss of exon 3
GAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacag
||| |||||||| |||||||| || || || ||||| || ||||||||||| |||||| ||||||||||||| ||||| ||||| || | |||||| || |||      | ||  ||         ||||||   | ||  ||| ||| | ||||                                        
GAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGCTCCAAAGAATGGCCGAGgtaaagaaaaactttttc-------cttgatgcaaagct--gtaaattctatctacag-------------------------------------

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|30133371|gb|CB918710.1|CB918710
EST:     TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAA                         TTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT
genomic: TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgcca ... cttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT
EST: gi|30252454|gb|CB970005.1|CB970005
EST:     TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAA                         TTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT
genomic: TTCCAGTTCTGATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAAgtatgtgcca ... cttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCT