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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGAAAGACATAACAGTGAAACTAGCATGCGGCTCCGTCGCAGGCTTACTGGGTCAGACATTAACTTACCCTCTTGATGTTGTTAGGCGGCAAATGCAGgtaagttactgcaattgtccgagtcactgaatctaaacattttcagaaataaagatcaaactaataaagagaaaaggaatcatcttaatag

Basic information

species Vitis vinifera
transcript Vv11s0016g02470.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os02g13300.1 (Oryza sativa), 5'ss of exon 5
CAAGAAAGACATAACAGTGAAACTAGCATGCGGCTCCGTCGCAGGCTTACTGGGTCAGACATTAACTTACCCTCTTGATGTTGTTAGGCGGCAAATGCAGgtaagttactgcaattgtccgagtcactgaatctaaacattttcagaaataaagatcaaactaataaagagaaaaggaatcatcttaatag
||  ||||| || |  |  ||||| || || || || || || || ||  | || |||||| |||| || || ||||||||||||||||||||||||||||||        | ||| ||   | ||  |  | || | ||| |    |||   | || ||  |||||   |  | | | |  |   |    
CAGAAAAGATATCATTGCAAAACTTGCCTGTGGATCTGTGGCTGGTTTGTTAGGGCAGACAATAACATATCCCCTTGATGTTGTTAGGCGGCAAATGCAGgta--------cgattttcttcggcatggggt-tataaattgttttgaat---gctctaaagaataatttgggatgaattgtttccag---

upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G161299_T02 (Zea mays), 5'ss of exon 5
-------------------------------------------------------------------------------------CAAGAAAGACATAACAGTGAAACTAGCATGCGGCTCCGTCGCAGGCTTACTGGGTCAGACATTAACTTACCCTCTTGATGTTGTTAGGCGGCAAATGCAGgtaagttactgca-attgtccgagtcactgaatc---taaacattttcagaaataaagatcaaactaataaagagaaaaggaatcatcttaatag
                                                                                     ||  ||||  || | ||  || || |  ||||| || || ||||| || || ||||||||| |||| ||||| || |||||||||||||| ||||||||||||   |  |||  || |   | |||  | || |   ||    || | |  ||||        | || | |                        
CTCCTTCACTATATGGAATCTTCCCTTACTCTGGTCTTAAATTCTACTTCTACGAGAAGATGAAGAGCCACGTTCCTGAAGAGCACAGAAAAGgtatcatagcaaagctcggttgcggatcagttgcaggtttgctaggtcagacaataacataccccctagatgttgttaggcgacaaatgcaggtattgttttgctcatagcatgtgtctgtaaagcatgtatgtgttctaaataatatgtggtgcattatttacag---------------------

upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G161299_T01 (Zea mays), 5'ss of exon 5
CAAGAAAGACATAACAGTGAAACTAGCATGCGGCTCCGTCGCAGGCTTACTGGGTCAGACATTAACTTACCCTCTTGATGTTGTTAGGCGGCAAATGCAGgtaagttactgca-attgtccgagtcactgaa---tctaaacattttcagaaataaagatcaaactaataaagagaaaaggaatcatcttaatag
||  ||||  || | ||  || || |  ||||| || || ||||| || || ||||||||| |||| ||||| || |||||||||||||| ||||||||||||   |  |||  || |   | |||  | ||   | ||    || | |  ||||        | || | |                        
CAGAAAAGGTATCATAGCAAAGCTCGGTTGCGGATCAGTTGCAGGTTTGCTAGGTCAGACAATAACATACCCCCTAGATGTTGTTAGGCGACAAATGCAGgtattgttttgctcatagcatgtgtctgtaaagcatgtatgtgttctaaataatatgtggtgcattatttacag---------------------

upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA01G00650.1 (Glycine max), 5'ss of exon 7
CAAGAAAGACATAACAGTGAAACTAGCATGCGGCTCCGTCGCAGGCTTACTGGGTCAGACATTAACTTACCCTCTTGATGTTGTTAGGCGGCAAATGCAGgtaagttactgca----attgtcc-------gagtcactgaatctaaacattttcagaaataaagatcaaactaataaagagaaaagga----atcatcttaatag------------
||| |||   || |  |  |||||  | || || || || ||||| ||| ||||||||||  | || || |||||||| || |||||| ||||||||||||||| ||||| ||    ||  |||       || |   |  || | |||||  |   || |  | | |   ||    | |  ||||         ||||| | ||             
CAATAAAAGTATCATGGCCAAACTCACGTGTGGATCTGTGGCAGGGTTATTGGGTCAGACCATCACGTATCCTCTTGAAGTGGTTAGGAGGCAAATGCAGgtaatttacttcatctgatcatccagataatgatttggtagatatcaacatggtacaaagttgacaaccgtctggccaggttaaaaaactcctgccatctgattatgctgaattgaag

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|110423965|gb|EC990318.1|EC990318
EST:     TGGGTCAGACATTAACTTACCCTCTTGATGTTGTTAGGCGGCAAATGCAGGAATCATCTTAATAG           
genomic: TGGGTCAGACATTAACTTACCCTCTTGATGTTGTTAGGCGGCAAAT----G------C-----AGgtaagttact