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'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtacccatatgcattccaagaaacctatctctctcacacccgatccctttgtgtcgcccaagtgtgcatgcacatgcccacccaattcacttgcataatctatcttttctgtgtagGCCGACAGACACAGAGGCCAGAATAGTGAAGATAAGATCCAATGGCTTTATTGTATTTGTGCCCAA

Basic information

species Vitis vinifera
transcript Vv07s0031g02190.t01
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA06G14870.1 (Glycine max), 3'ss of exon 22
gtatgtacccatatgcattccaagaaacctatctctctcacacccgatccctttgtgtcgcccaagtgtgcatgcacatgcccacccaattcacttgcataatctatcttttctgtgtagGCCGACAGACACAGAGGCCAGAATAGTGAAGATAAGATCCAATGGCTTTATTGTATTTGTGCCCAA
                               |      || ||     |    |||  |    |  | |   | ||| |   || || ||||    | ||  |    ||| |      ||||| |||||||| ||||| ||||||||||| |||||||| ||||| ||| |||| ||||| |||||
------------------------------gtactcgacaaacttctgcttcctgttacagttatttttatctacactt-tgcagcctattctaacgtatgttgatccttgttcacacagGCCTACAGACACCGAGGCTAGAATAGTGAAAATAAGATCTAATGGATTTTTTGTGTTTGTTCCCAA

upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA04G39980.1 (Glycine max), 3'ss of exon 22
gtatgtacccatatgcattccaagaaacctatctctctcacacccgatccctttgtgtcgcccaagtgtgcatgcacatgcccacccaattcacttgcataatctatcttttctgtgtagGCCGACAGACACAGAGGCCAGAATAGTGAAGATAAGATCCAATGGCTTTATTGTATTTGTGCCCAA
                             ||| |  || |    |    || |  |   |   |  | |   | ||| |  |  || | |  |   | ||  |     || |      ||||| |||||||| ||||  ||||||||||| |||||||| ||||| ||| |||| ||||| |||||
----------------------------gtatgtgacttaacttctgctccctgttactgtt-atttttatctacacttaacagcctattctaac-gtatgttgatctttgttcacacagGCCTACAGACACGGAGGGTAGAATAGTGAAAATAAGATCTAATGGATTTTTTGTGTTTGTTCCCAA

upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT2G17510.2 (Arabidopsis thaliana), 3'ss of exon 23
gtatgtacccatatgcattccaagaaacctatctctctcacacccgatccctttgtgtcgcccaagtgtgcatgcacatgcccacccaattcacttgcataatctatcttttctgtgtagGCCGACAGACACAGAGGCCAGAATAGTGAAGATAAGATCCAATGGCTTTATTGTATTTGTGCCCAA
                     | | |   ||| |   |||     ||  | |   ||      | |  || |     |       | ||   |     || || | | |||    || || || |||||   |||||| ||| | |||||||||||||||||||| ||||| |||||||| |||||
-------------------gtatggattgtatattcttcat----gaatcttacttgattttaaggcatggactggtaaa---gactaagaga---aaattatgtgtgtttctgttgcagACCCACAGATGAAGAGGCGAGAGTTGTGAAGATAAGATCCAATGGTTTTATAGTATTTGTCCCCAA

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|349815930|gb|FQ403547.1|FQ403547
EST:     CAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTTCAGGAA-CG                         GCCGACAGACACAGAAGGC-AGAATAGTG
genomic: CAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTT-CAGGAAACGgtatgtaccc ... ttctgtgtagGCCGACAGACACAGA-GGCCAGAATAGTG
EST: gi|351054754|gb|FQ462784.1|FQ462784
EST:     GCAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACG                         GGCGACAGACACAGAGGCC
genomic: GCAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACGgtatgtaccc ... ttctgtgtagGCCGACAGACACAGAGGCC
EST: gi|351048032|gb|FQ441204.1|FQ441204
EST:     GCAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACG                         GCCGACAGACACAGAGGCCAGAATAGTGAAG
genomic: GCAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACGgtatgtaccc ... ttctgtgtagGCCGACAGACACAGAGGCCAGAATAGTGAAG
EST: gi|351055546|gb|FQ442342.1|FQ442342
EST:     GCAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACG                         GCCGACAGACA
genomic: GCAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACGgtatgtaccc ... ttctgtgtagGCCGACAGACA
EST: gi|351036566|gb|FQ457279.1|FQ457279
EST:     GCAAGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACG                         GCCGACAGACACAGAGGCCAG
genomic: GCAGGCCGGGCCTCGGTAGAGCTGCATACTCTAATCTATTTCAGGAAACGgtatgtaccc ... ttctgtgtagGCCGACAGACACAGAGGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgcatgcacatgcccacccaattcacttgcataatctatcttttctgtgtagGCCGACAGACACAGAGGCCAGAATAGTGAAGATAAGATCCAATGGCTTTATTGTATTTGTGCCCAA
                                     tctatcttttctgt  CT-rich tract
                                 ataatctatctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtacccatatgcattccaagaaacctatctctctcacacccgatccctttgtgtcgcccaagtgtgcatgcacatgcccacccaattcacttgcataatctatcttttctgtgtagGCCGACAGACACAGAGGCCAGAATAGTGAAGATAAGATCCAATGGCTTTATTGTATTTGTGCCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA