Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTTGTGGGTTTGAGCGAAGAACAGGCTACAGATCAAGCAGAGGGAGACATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGGgtatatgcaacaatatgaaattttattgtgctagataatttataatcttacaaagaaacagattatcctattcttgtgtagaagtttattatagtgttat...

Basic information

species Vitis vinifera
transcript Vv05s0051g00870.t01
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0051g00870.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA16G27210.1 (Glycine max), 5'ss of exon 14
CTGTTGTGGGTTTGAGCGAAGAACAGGCTACAGATCAAGCAGAGGGAGACATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGGgtatatgcaacaatatgaaattttattgtgctagataatttataatcttacaaagaa--acagattatcctatt-cttgtgtagaagtttattatagtgttat
|||| || ||| | || || || ||||| | ||| ||| |  | || ||  | |||||||| ||||||||||||||||| |||||||| || |||||||||||  || |   |  || ||||||      ||  |   |||||       ||| ||    |||| |     ||  ||||  |   ||   | |||  | ||| 
CTGTAGTTGGTCTCAGTGAGGAGCAGGCAATAGAGCAAACCAATGGGGATCTGTTGGTTTTTACATCAACCTTCAATCCTATGAAAAATACCATCTCTGGgtaagtgtagtgacttggaattttcacccacttcacc-tttattgcaaatcaatgacttgcagaattcatgataacttggatcagagaacaatatttt-tta-

upper sequence: Vv05s0051g00870.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA02G08180.1 (Glycine max), 5'ss of exon 13
CTGTTGTGGGTTTGAGCGAAGAACAGGCTACAGATCAAGCAGAGGGAGACATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGGgtatatgcaacaatatgaaattttattgtgctagataatttata-atcttacaaagaaacagattatcctatt-cttgtgtagaagtttattatagtgttat
|||| || ||| | || || || ||||| | ||| ||| |  | || ||  | |||||||||||||||| ||||||||| |||||||| || |||||||||||  || |   |  || ||||||      ||  |   ||  |  |  | |   |    |||| |     ||  ||||  ||  ||   | |||  | ||| 
CTGTAGTTGGTCTCAGTGAGGAGCAGGCAATAGAGCAAACCAATGGCGATCTGTTGGTTTTCACATCAATCTTCAATCCTATGAAAAATACCATCTCTGGgtaagtgtagtgacctggaattttcacccacttcacctttgttgcaaatcaatgacttgcagaattcatgataacttggataagagaacaatatttt-tta-
















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|22009745|gb|BQ794779.1|BQ794779
EST:     ATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGG                         ACGGCAAGAGAAGACAATTATGAAGCTTCTTGTTGATGCTGAGACAGACAA
genomic: ATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGGgtatatgcaa ... gtgtatttagACGGCAAGAGAAGACAATTATGAAGCTTCTTGTTGATGCTGAGACAGACAA
EST: gi|110729876|gb|EE106312.1|EE106312
EST:     TTTTGGTTTTCACATCA-CCTTTCAATCCAAGGAAAA-CACAATCTCTGG                         ACGGCAAGAGAAGACA-TTATGAAGCTTCTTGTTGATGCTGAGACNGACAA
genomic: TTTTGGTTTTCACATCAACCTT-CAATCCAATGAAAAACACAATCTCTGGgtatatgcaa ... gtgtatttagACGGCAAGAGAAGACAATTATGAAGCTTCTTGTTGATGCTGAGACAGACAA
EST: gi|161714653|gb|FC062658.1|FC062658
EST:     ATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGG                         ACGGCAAGAGAAGACAATTATGAAGCTTCTTGTTGATGCTGAGACAGACAA
genomic: ATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGGgtatatgcaa ... gtgtatttagACGGCAAGAGAAGACAATTATGAAGCTTCTTGTTGATGCTGAGACAGACAA
EST: gi|29783481|gb|CB349670.2|CB349670
EST:     ATTTTGGTTTTCACATCAACATCCAATCCAATGAAAAACACAATCTCTGG                         ACGGCAAGAGAAGACAATTATGAAGCTTCTTGTTGATGCTGAGACAGACAA
genomic: ATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGGgtatatgcaa ... gtgtatttagACGGCAAGAGAAGACAATTATGAAGCTTCTTGTTGATGCTGAGACAGACAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGTTGTGGGTTTGAGCGAAGAACAGGCTACAGATCAAGCAGAGGGAGACATTTTGGTTTTCACATCAACCTTCAATCCAATGAAAAACACAATCTCTGGgtatatgcaacaatatgaaattttattgtgctagataatttataatcttacaaagaaacagattatcctattcttgtgtagaagtttattatagtgttat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaaa