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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagttttatttatgttaaattgaatgtcttatgggatagcattatgtattgttttcattttgaacatgagtataatgtcgagatacatgttttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG

Basic information

species Vitis vinifera
transcript Vv01s0244g00070.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0244g00070.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G44630.1 (Glycine max), 3'ss of exon 14
-------tagttttatttatgttaaattgaatgtcttatgggatagca---ttatgtattgttttcattttgaacatgagtataatgtcgag-atacatgttttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
       |  |   |  |||  | |  ||||     ||||   |  |    ||||| |   |    || || |     ||    ||| | |  ||   ||||||  || |||||||||| ||||||| ||||||||||||||||||||||||
gtatgttttctcccacctatcattagctgaaatagctatgcattgtcccttttatgcaaaatgcaaatgttaagttaaagct--atgccaaatatctttgtttttatgtagAATTGAGTCCAGAGGAATCTGAGGATGTTCTTTTCAAGGAG

upper sequence: Vv01s0244g00070.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT5G13260.1 (Arabidopsis thaliana), 3'ss of exon 14
-tagttttatttatgttaaattgaatgtct-tatgggatagcattatgtattgttttcattttgaacatgagtataatgtcgagatacatgttttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
 |     |    |  |||| ||||| | |  |||   ||      |    |  | ||  | || |  || | | | |  | |   |   || |   ||||||||||||||  ||| ||||||||||||||||| |||||||||
atgaccatgaaaaacttaacttgaacgccagtatcctatgttccaacagttcttgttattcttaaggataattctgaccttggcctg--tggtcctttgcagAATTGAGTCAAGAAGAGTCTGAGGATGTTCTCTTCAAGGAG
















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|110419885|gb|EC986139.1|EC986139
EST:     ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTG                         AATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
genomic: ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTGgtaagttgta ... tttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
EST: gi|30256328|gb|CB972171.1|CB972171
EST:     ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTG                         AATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
genomic: ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTGgtaagttgta ... tttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
EST: gi|30256262|gb|CB972105.1|CB972105
EST:     ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTG                         AATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
genomic: ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTGgtaagttgta ... tttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
EST: gi|352768717|gb|FQ467929.1|FQ467929
EST:     ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTG                         AATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
genomic: ATCTTAAATCACCCGGTGATCCAAAGTATATGGAAGCATTTGgtaagttgta ... tttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattgttttcattttgaacatgagtataatgtcgagatacatgttttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG
                                          tgttttctt  CT-rich tract
      ttttcatttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagttttatttatgttaaattgaatgtcttatgggatagcattatgtattgttttcattttgaacatgagtataatgtcgagatacatgttttcttgcagAATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - -gaatgtc
- - - - - - - - - - - - - - ttatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agataca