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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaattttcagtagactttgaagtttg...

Basic information

species Vitis vinifera
transcript Vv15s0045g00310.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 4
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaatt----ttcagtagactttgaagtttg
||||| ||||||| || || ||||| ||||| || ||||||||||||  |||| |||| ||||| || || |||||||||||||| || ||||| |||||||  ||    | |||||||    ||    ||| | |   || || |||     ||    | |  |    |||||   ||    |   ||    |||||||    
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctat---tattgtactgagattacctttttt-tgttctgttaattgtgtttttgccaactctatgatttatgtgttgtgttctggttacttttgaag----

upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaattttcagtagactttgaagtttg
||||| ||||||| || || ||||| ||||| || ||||||||||||  |||| |||| ||||| || || |||||||||||||| || ||||| |||||||  ||     ||  |    ||   ||| ||| |   |    |||  |    |   |    |     | | |      ||   ||    |||||||    
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgttctggttacttttgaag----

upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G008327_T01 (Zea mays), 5'ss of exon 5
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgtta--accatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaattttcagtagactttgaagtttg
||||||||||||||||||||||||| ||||| || |||||||||||    ||| | || ||||| || || ||||| || ||| | || ||||| |||||||  ||  |   || ||   ||   ||| |  |||| ||    | |  ||   |  ||     |  || |  |   |  ||  || |      |||||    
TTGATGTGTGGTCTGTGGGCTGTATCTTTGCGGAAATGGTGAACCAAAAGCCACTATTCCCTGGCGATTCTGAGATCGACGAACTTTTTAAGATATTCAGgttctatgattgtgctggcattaaatttcttattctgtatttgcgtattttagacctgtctgactttgtttgtgtca--ttgccactg----ctgaag----

upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA05G25320.1 (Glycine max), 5'ss of exon 4
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaattttcagtagact-----ttgaagtttg---
||||| | ||||| ||||| || |||||||| |||||||| || || |||||| | || ||||||||||| ||||||||||||||||| || || ||||||||  ||     ||    |||||   |  ||||||| |    |||   || |  | |||| |  || |   |  ||| ||     ||| |        || ||     
TTGATATTTGGTCAGTGGGATGCATATTTGCAGAGATGGTAAATCAACGACCACTTTTCCCTGGGGACTCTGAGATTGATGAATTGTTTAAAATATTCAGgtg--aatagcctt----tttttccataatttctattgttctttgggaagcatattaaaatc--tgttggctgaaaacttgacaaagaatgcctgcccaaattcccct

upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 5
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgt-taaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaat-tttcagtagactttgaagtttg--
||||||| ||||| ||||| ||||||||||| |||||||| ||||  |||||  | || ||||||||||| |||||||||||||| || || || |||||||   || | || |  |  |||   |    |||  ||    ||||| | | |  || | ||    |    | ||| ||| | ||  |||||||| || | |   
TTGATGTTTGGTCAGTGGGATGTATATTTGCAGAGATGGTAAACCGACGACCTCTATTCCCTGGGGACTCTGAGATTGATGAATTATTTAAAATATTCAGgtaaatatctatttcctgatttccataaattttgcat---ttcttggt-aaatcttaataaaatctatcatctatgaatatgtctctagacttttaaatgtcat

upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G08330.1 (Glycine max), 5'ss of exon 5
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgt-taaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatg-ctctttataaattttcagtagactttgaagtttg
||||| | ||||| ||||| || |||||||| |||||||| || || |||||  | || ||||||||||| ||||||||||||||||| || || ||||||||  || || | ||    |  ||| | |  |||| | |       |||| ||  |        |   ||    | | | |  | |   |  || || ||  
TTGATATTTGGTCAGTGGGATGCATATTTGCAGAGATGGTAAATCAACGACCTCTTTTCCCTGGGGACTCTGAGATTGATGAATTGTTTAAAATATTCAGgtgaatagccttttttccatgatttctattgttctttgggagtcatattaaaatctcttggctgaaaacttgacaaagaatgcctgcccaaattcaaatt--

upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA09G03470.1 (Glycine max), 5'ss of exon 5
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgt-taaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaat-tttcagtagactttgaagtttg--
||||||| ||||| ||||| || |||||||| |||||||| |||   |||||  | || ||||||||||| |||||||||||||| || || || ||||||||  || | || |  |  |||   |    |||  ||    |  ||  || |  || | ||    |    | ||| ||| | ||  |||||||| || |     
TTGATGTTTGGTCAGTGGGATGCATATTTGCAGAGATGGTAAACAGACGACCTCTATTCCCTGGGGACTCTGAGATTGATGAATTATTTAAAATATTCAGgtgaatatctatttcctgatttccatgaattttgcat----ttctgggtaaatcttaataatatttatcatctatgaatatgtctctagacttttaaatgccat

upper sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S25_198V6.7 (Physcomitrella patens), 5'ss of exon 6
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgt--taaccatgttgtacttttttttttctttctatagcctc-ttgattagaagttgaaaagccatgctctttataaattttcagtagactttgaagtttg
| |||||||||||||| || || || || ||||||||||| || || || || |||||||| || || || ||||| |||||  ||||||| ||||||||||    | |    |  |  ||| || |||   | | ||||||   | | | |    ||  |    || |    | ||   |     |  || |||  ||    
TAGATGTGTGGTCTGTAGGATGCATTTTCGCTGAGATGGTCAATCAACGGCCCTTGTTTCCAGGAGATTCTGAGATAGATGAGCTGTTCAAAATCTTCAGgtaaagttatttcggcgagcttattctttgtatccgatagccgagtcggtgatgtattcgattatcaagtcggtaattgttaagtcggtgattttacag----

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|22013045|gb|BQ798079.1|BQ798079
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|110376567|gb|EC941627.1|EC941627
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|110360550|gb|EC923749.1|EC923749
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|110716217|gb|EE091004.1|EE091004
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|71889466|gb|DT038521.1|DT038521
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|22011236|gb|BQ796270.1|BQ796270
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|110422498|gb|EC988823.1|EC988823
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|110427638|gb|EC994087.1|EC994087
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
EST: gi|28967267|gb|CB346300.1|CB346300
EST:     CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAG                         GGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC
genomic: CCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaacca ... ttctattaagGGTATTGGGCACACCAAATGAGGATACATGGCCAGGAGTGACTTCTTTGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaattttcagtagactttgaagtttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgaaaa