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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt...

Basic information

species Vitis vinifera
transcript Vv09s0002g06010.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os01g42690.2 (Oryza sativa), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacattttct-atgatttctttata--gcattcttgtaattagaagttcaatgggtaccatttt
|  ||    | ||||  || |||||  | ||||||||||||||||| |  ||||||||||| || || ||||| |||||||| || ||||||||| |||||||      |     ||  | |  | |  |  ||| | || |      | |||| |||||| |    ||   |  |||||| |      | |   |  | |  
GGCGGCGGGTGGAGTACGGGAGGACGTACGTGGTGAGGCCCAAGGGGAGGCACCAGGCCACCATTGTGTGGCTCCATGGCCTCGGCGACAATGGCGCAAGgtaacccatcatcacttctctagagttctc--tctctcgatctcgagatgatgacttctttcttccacagcttaataattatattacacacgaccaaaaata-

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os05g51050.1 (Oryza sativa), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt-----
|   ||   ||||||  || |||||  ||||||||||||| |||||||  ||||| ||||| || || ||||| |||||||| |||||||||||  ||||||| |   ||||| |  | |   |  |   ||   ||||  | | ||| |  |  | ||  |         |    |     |||||    ||| || ||     
GTCAGAGAGTTGAGTACGGGAGGACCTATGTGGTGAGGCCAAAGGGAAGGCACCAAGCCACCATTGTGTGGCTTCATGGCCTAGGTGACAATGGTGCAAGgtacta--gctgtatgctgctggt-ttgatatagatttg--cctgttccacaaacttttcttgcttactcagatgctcccctttcaagcaatactatcttcttca

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os04g09540.1 (Oryza sativa), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacatt-ttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt--
|  |||   | |||| ||| |||||  || | |||||||| |||||||  ||||| ||||| || || ||||| ||||| || |||||||||||  ||||||||| |   |  |   || | |    | ||  |  |    | |  ||| |   |||  || |   | || ||    |  |||     |   | | |  ||  
GTCGGAGAGTCGAGTATGGGAGGACCTATATAGTGAGGCCAAAGGGAAGGCACCAAGCCACCATTGTGTGGCTCCATGGTCTAGGTGACAATGGTGCAAGgtattata--tagtggctagcttgatatacagccactgcctcttcgttccaaactttgcttgtt-tactcatgctccttcaagcatggtaccttctacctttt

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G481362_T01 (Zea mays), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacattttcta-tgatttct----ttatagcattcttgtaattagaagttcaatgggtaccatttt
|  ||    | ||||  ||  ||||  | ||||||||||||||||| |  ||||||||||| || || ||||| |||||| | || |||||||||   ||||||  | | |||     ||||| || ||||| ||  |     | |  || | |||| |     |  | || |  ||| |||       |    |||   | |  
GGCGGCGTGTGGAGTACGGGCGGACGTACGTGGTGAGGCCCAAGGGGAGGCACCAGGCCACCATTGTGTGGCTCCATGGCATCGGCGACAATGGCGGCAGgtat-atagatgtaaa--accat-gcatgcatgctgcttgttgtctagtagtcatttgtgctgctcgatcactgctgttatttacctgccctctggtgatagta-

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G015692_T01 (Zea mays), 5'ss of exon 3
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttca-atgggtaccatttt
| ||||   | || | ||| |||||| ||||||||||||| |||||||  ||||  ||||| || || ||||| |||||| | |||||||||||  | |||||         |  |   |   ||| | | || |||| || | |||   | |||  | |   |        |   |   |  |||      | |||  | 
GTAGGAGAGTCGACTATGGGAGGACATATGTGGTGAGGCCAAAGGGAAGGCACCTAGCCACCATTGTGTGGCTCCATGGCATAGGTGACAATGGTGCTAGgtacccacttattgctaggctcatgcctaccttttttttaaaactttgctttattcatatgatgatcctccatgcatgctatctcatgcaactgccacat-

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA08G22420.1 (Glycine max), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgtttt--ttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt---
| || | ||| |||||||| | |||||||||||||||||| || ||||||||||| || || ||||||||||| ||||| |||||||||||||| |  |||||| | ||   || |  |||  |||| ||  || | |    |  |   ||||||    | ||| | | | || |   | |  | ||  |   || | | |    
GGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatggatggcattctctttaatattg-ttatatgcct----aattcacctatgaggcatatattgtacttttttctgttgtggatcctttcatagcttgtgtct

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA15G01350.1 (Glycine max), 5'ss of exon 3
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtat---tgttgctgt-tttttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt
||||  | ||||||||||| | ||||||||| |||||||| || ||||||||||| ||||| ||||||||||| ||||| |||||||| ||||| |  ||||||   |||     | | || |  ||||       || ||  | ||||| | |  |||   | |   ||||||||||    |  |||| ||    ||  ||  
GAAGAGCTTTTGAGTTTGGGAAGACACATGTAGTGAGGCCAAAAGGAAAACACCAAGCCACTATAGTTTGGCTGCATGGTCTTGGTGATAATGGTTTGAGgtatgcatgtcatcatgtcttcaatattgtcataggtcattctatcatttcc-acaatta--tcagttcattcttgta-ccggttgttctatattcacttttcc

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA07G03670.2 (Glycine max), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgtttt--ttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt------
| || | ||| |||||||| | |||||||||||||||||| || ||||| ||||| || || ||||||||||| ||||| |||||||| ||||| |  |||||| | ||   || |  |||  |||| ||  || | |     ||||  |      |   || ||   ||  |||  | |    ||  || | |    | ||      
GCAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAGCACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGATAATGGTTTGAGgtatggatggcattctctttaatattg-ttatatgcct-----cattcaccgca--tgtattgtactttttctgttgtgaatcatttcatagcttgtgtcttttcttc

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA13G43990.2 (Glycine max), 5'ss of exon 3
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgtt-ttttaccattgcttgcat---tcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt
||||  | || |||||||| |  |||||||| |||||||| || |||||||| || ||||| ||||||||||| ||||| |||||||| ||||| |  |||||| | ||   |  | |   || |  | ||||   || ||  ||||||  |     | ||  |    ||||||||||  | |  |||| ||   | |  ||| 
GAAGAGCTTTCGAGTTTGGGAAAACACATGTAGTGAGGCCAAAAGGAAAACATCAAGCCACTATAGTTTGGCTGCATGGTCTTGGTGATAATGGTTTGAGgtatggatgtcatcatctcttcaataatggcataggtcattctaacattgccacaactatcacttattcattcttgta-ctggttgttctata--ttctcttt-

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt----
 ||||   | ||| |||||||||||  |||| |||||||| || ||||| || || |||||  |||| ||||| ||||| ||||||||||||||||| ||||     |     ||   |    |  ||  ||| || ||    |||| | ||  ||      | ||  ||   |  | ||||   ||      || |  |    
CAAGGGGATATGAATTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCATCAAGCCACTCTAGTCTGGCTTCATGGTCTTGGTGACAATGGCTCTAGgttacact----cttcacatggctctttcgattattatgctttttttttgtgtcttaaaagaatcaaactaacatcttgaagcataaactcctccgtggtgctt

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT3G15650.2 (Arabidopsis thaliana), 5'ss of exon 2
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgttttttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt-------
 ||||  || |||||||||||||||  |||| |||||||| || ||||| ||||| || || || |||||| | || || ||||| ||||||||||| ||||||| |     | | | ||  |||| |   || || ||||||   || |  | |     |    | | || |  || |||     |  |  |   || |       
CAAGGGGCTATGAGTTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCACCAAGCTACTATTGTTTGGTTGCACGGTCTTGGAGACAATGGCTCCAGgtattataatactatctcac--ttgcct-tgtttttatgaacaaaatcaagtaata----aagaaagttttatgctttgaaagcttaaagtcatacttgtcaaaaca

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|110707158|gb|EE083312.1|EE083312
EST:     CAATGGCTCAAG                         TTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAAT
genomic: CAATGGCTCAAGgtattgttgc ... actctttcagTTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAAT
EST: gi|110380838|gb|EC946134.1|EC946134
EST:     CACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAG                         TTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAAT
genomic: CACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgc ... actctttcagTTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAAT