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

AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgaccaatttagaacagctgcacttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag

Basic information

species Vitis vinifera
transcript Vv03s0063g02450.t01
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 5'ss of exon 15
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgaccaatttagaacagctgcacttcatgttttctgaccttactcgggacttccattg-taacttttctatacttgttggcag
||| |||||| | || |||||||| |||||||||| |||  ||||||||||| |||| ||||| || |||||||| || ||||| ||  |||| ||| | ||||  || | |||        | ||||   | ||||      |   |  |  |||   |    ||  ||| |||    |       
AACTGAATATTCAGTCAATGTTGTGAAGCACATTTATGACGGGCATGTTGTGCTCCAATACAATTGTACCAATACTATACCTGAACAGCTGCTTGAAGAGgtaa--acgatttt-------ttccactcagtatttttatttatggattagtgcttttctgaacaatgtttttatttcag-------

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GRMZM2G415729_T01 (Zea mays), 5'ss of exon 4
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgta-atgaccaatttagaacagctgcacttcatgttttctgacct-tactcgggact--tccattgtaacttttctatacttgttggcag
 || |||||  | ||||||||||| ||||| ||||||||| | ||||||||| |||| |||||||| ||||||||||||||||| |||||||| ||| | |||  | ||  |||| |  ||   |   |  | |   | |||  | |  |   || |  |   || |||||  || || |       |||
GACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggt-ttaaaagcaatatgatgtgtttttatgattcattgcttttaactcctcaattcc-----acag

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 15
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgta-atgaccaatttagaac--agctgcac-ttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag
 || |||||  | || |||||||| ||||| ||||||||| | ||||||||| |||| |||||||| ||||||||||||||||| |||||||| ||| | |||  | ||  |||| |     || |  || | ||| |  | ||   |||      | | || ||  ||||  || ||     ||  |||
GACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttatttcgtgtgtaggtttacatgcatatgatgtgtttttatgattcagtgccttt--aactcctcaat-----ttcacag

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GRMZM2G459437_T01 (Zea mays), 5'ss of exon 3
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgta-atgaccaatttag--aacagctgca-----cttcatgt---tttctgaccttactcgggacttcca----ttgtaacttttctatacttg-ttggcag------------------------------------
 || |||||  | ||||||||  | ||||| ||||||||| | || |||||| |||| |||||||| ||||||||||||||||| |||||||| ||| | |||  | ||  |||| |   | || |  |     ||| |      || |||   ||  | |   ||||      |  | | ||||    | ||| || | ||                                    
GACTGAATACTCAGTTAATGTCATGAAGCATATTTTTGATGGACACGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggtttaaaagcctttagacaggttactgttttttgttgatgcttctgaggctgatgaatttttagaagttgcttcgaagcctttagaattattgccatatgattctcctgggcag

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GRMZM2G459437_T02 (Zea mays), 5'ss of exon 3
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgta-atgaccaatttagaacagctgcacttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag
 || |||||  | ||||||||  | ||||| ||||||||| | || |||||| |||| |||||||| ||||||||||||||||| |||||||| ||| | |||  | ||  |||| |  ||   |   |  | |  ||  |||                                            
GACTGAATACTCAGTTAATGTCATGAAGCATATTTTTGATGGACACGTTGTGCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggt-ttaaaagcctttagacag------------------------------------------

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GRMZM2G361791_T01 (Zea mays), 5'ss of exon 2
---AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgta-atgaccaatttagaacagctgcacttcatgttttctgacct-tactcgggact--tccattgtaacttttctatacttgttggcag
    || |||||  | |||||||| || ||||| ||||||||| | |||||   | |||| |||||||| ||||||||||||||||| |||||||| ||| | |||  | ||  |||| |  ||   |   |  | |   | |||  | |  |   || |  |   || |||||  || || |       |||
TGAGACTGAATACTCAGTTAATGTCGTGAAGCATATTTTTGATGGACATGT---GCTCCAATACAACTGTACCAATACAATTCCTGAACAATTGCTTGAACAGgtatgtaacttattttgtgcataggt-ttaaaagcaatatgatgtgtttttatgattcattgcttttaactcctcaattcc-----acag

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 15
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgaccaatttagaacagctgcacttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag
 ||||||||||||||||||||  | || ||||||||||||||||||||||||||||||||||||||||| || || || || ||||||||| ||||| |||||||||  | | ||||        | ||  | |    | | |  ||||     |    |||||| | || | | | | ||  |||
GACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACAAACACGATACCAGAGCAATTGTTGGAACATgtaatgaatattatagatgcttcaaattttct-taaaataatccaactccaaggtct--ttgtaattatttt-tccctatta-cag

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA04G01470.1 (Glycine max), 5'ss of exon 15
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgaccaatttagaacagctgcacttcatgttttctgaccttactc-gggacttccattgtaacttttctatacttgttggcag
 ||||||||||| ||||||||  | || ||||||||||||||||||||||||||||||||||||||||| || || || || ||||||||| ||||| |||||||||  | | ||||        | ||    |    | | |  ||||   |   |   |  | | |||||| || ||   |    
GACAGAATATGCAGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACAAACACGATACCAGAGCAATTGTTGGAAGATgtaatgaatattatagatgcttcaaatttttcataaaataatccaactccaaggtctttgtaattatttttctcta-ttacag----

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA12G04820.1 (Glycine max), 5'ss of exon 15
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgaccaatttaga-acagctgcacttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag
 ||||||||||| ||||||||||| ||||||||||||||| ||||||||||||| || ||||||||||| || || || || ||||||||  ||||| ||||||||||   | | || || |    | |||||  |     |    ||||  |   | |  | ||| ||||   |   |    |   
GACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCACAAACACGATACCAGAGCAATTATTGGAAGATgtaatgacttgtatcgatactgtataatttcatactag--aatgcaactccaggtcttctgtataaatttttcctctattccag---

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 15
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgaccaatttagaacagctgcacttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag
 ||||||||||| ||||||||||| || |||||||||||| ||||||||||||| || ||||||||||| || || || || ||||||||  ||||| ||||||||||   | |  |     |||| ||    |  | | |    ||||  |   | |  | ||| |||||  |   |    |   
GACAGAATATGCAGTTAATGTTGTTAAACACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCACAAACACGATACCAGAGCAATTATTGGAAGATgtaatgacttgtatcaatactttgcaattt-catactataatgcaactccaggtcttctgtataatttttccctctattccag---

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 14
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgacca---atttagaacagctgcacttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag
||||||||| ||||| |||||||| ||||| || ||||| || ||||| ||||| |||||||||||||| || ||||| || ||||| ||| |||| |  ||| ||| ||    | ||||| |   |         | |  |  | ||  |         ||||  |    ||    |   | | | ||
AACAGAATACGCTGTCAATGTTGTTAAGCATATCTTTGACAGTCATGTGGTGTTTCAGTACAACTGCACTAACACAATACCAGAGCAGTTGTTGGAGAGGgtactgaacattggtgtagaatattagtgtcaagcatatcttatctttcttt-----cctcatttaattaatttggcatggggttgtag

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|71855416|gb|DT004471.1|DT004471
EST:     TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAAC                         GTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
genomic: TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgacca ... ttgttggcagGTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
EST: gi|34546253|gb|CF514485.1|CF514485
EST:     CGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAAC                         GTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
genomic: TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgacca ... ttgttggcagGTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
EST: gi|7593709|gb|AW707960.1|AW707960
EST:     TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAAC                         GTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
genomic: TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgacca ... ttgttggcagGTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
EST: gi|71868042|gb|DT017097.1|DT017097
EST:     TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAAC                         GTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
genomic: TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgacca ... ttgttggcagGTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
EST: gi|71875737|gb|DT024792.1|DT024792
EST:     TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAAC                         GTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
genomic: TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgacca ... ttgttggcagGTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
EST: gi|110364003|gb|EC927640.1|EC927640
EST:     GAGCAATTGCTGGAAAAC                         GTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAA-TCTTCCGAAGTATC
genomic: GAGCAATTGCTGGAAAATgtaatgacca ... ttgttggcagGTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTC-TCCGAAGTATC
EST: gi|77586149|gb|DV222167.1|DV222167
EST:     TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAAC                         GTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA
genomic: TGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgacca ... ttgttggcagGTCACTGTTATCGTGGATGCTTCAGATGCAGAGGAATTCTCCGAAGTATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCACCAATACAATTCCTGAGCAATTGCTGGAAAATgtaatgaccaatttagaacagctgcacttcatgttttctgaccttactcgggacttccattgtaacttttctatacttgttggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA