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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTTGGTGAGGTTGCAGAAGGGCTTGAGACACTAACGAGGATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttcacttttgtttatatttaatttaatgatattttttctccttttgtattctatcatatgcgacatgaactaaaaatccctcctattttgacag

Basic information

species Vitis vinifera
transcript Vv19s0027g01660.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0027g01660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G146190_T01 (Zea mays), 5'ss of exon 5
GTTTTTGGTGAGGTTGCAGAAGGGCTTGAGACACTAACGAGGATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttcacttttgtttatatttaatttaatgatattttttctccttttgtattctatcata-tgcgacatgaactaaaaatccctcctattttgacag
|| |||||   |||||| |||||  |||| || || || |  ||||||||||||||||| |||||||| || |||||||  ||  | ||  |||    ||     || |||||   |   ||| | | |   ||   |   |  |      |  || || |   | || |   |  |  |   ||||    | 
GTGTTTGGGATGGTTGCCGAAGGTTTTGATACGCTGACAAAAATAAATGAAGCTTATGTTGATGATAATGGAAGACCATTCAAGGACATAAGgtggagttttgaattttttattaatgtcttagttacaccattaaacgaatgtttaggggtggtaatgggctctaaatttttacactataaaatttaagga-

upper sequence: Vv19s0027g01660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA19G00460.1 (Glycine max), 5'ss of exon 5
GTTTTTGGTGAGGTTGCAGAAGGGCTTGAGACACTAACGAGGATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgt-ttcacttttgtttatatttaatttaatgatattttttctccttttgtattctatcatatgcgacatgaactaaaaatccctcctattttgacag-----
|||||||| ||||| || |||||  |||||||  ||||||| |||||||| |||||||||||||| || || ||||| |||||||||||  ||||| |  | | | || | ||     || |      ||    |  |  ||| |||||      | || || |   |  |   || | | ||   ||    |     
GTTTTTGGCGAGGTAGCTGAAGGATTTGAGACTTTAACGAGAATAAATGAGGCTTATGTGGATGAGAAGGGAAGACCCTATAAAAATATAAGgtttatactaattcttctctactacaaaatgtggattaaaaatgatgttttcgtatttgtctttttgagataaataaaatgtattctttctgaattacttgagtag

upper sequence: Vv19s0027g01660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA15G28380.1 (Glycine max), 5'ss of exon 5
GTTTTTGGTGAGGTTGCAGAAGGGCTTGAGACACTAACGAGGATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtt-tcacttttgtttatatttaatttaatgatattttttctccttttgtattctatcatatgcgacatgaactaaaaatccctc---ctattttgacag
|||||||||||| | || |||||  | |||||  |||| || |||||||| |||||||||||||| ||||| ||||| |||||||||||  ||||| |  ||| | || | ||     || |      ||    |  |  ||||| ||    |  |  |  | || || |  |      |     || ||    ||
GTTTTTGGTGAGCTAGCTGAAGGATTCGAGACTTTAACTAGAATAAATGAGGCTTATGTGGATGAGAAAGGAAGACCCTATAAAAATATAAGgtttatagtcattcttctctactgcaaaatgtggattaaaaatgatgtttttgaatgtctttttgagataaataaaatgtattctttttgaattacttgagtag

upper sequence: Vv19s0027g01660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EFJ15908 (Selaginella moellendorffii), 5'ss of exon 5
GTTTTTGGTGAGGTTGCAGAAGGGCTTGAGACACTAACGAGGATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtt--tgtttcacttttgtttatatttaatttaatgatattttttctccttttgtattctatcatatgcgacatgaactaaaaatccctcctattttgacag
 ||||||| |||||||| |||||  |||| || || ||||||||||||||||||||||| ||||| ||     | || || ||||| || ||||   | | || ||| |  ||     |   ||     ||  || |   |                                                     
ATTTTTGGGGAGGTTGCGGAAGGTTTTGAAACTCTGACGAGGATAAATGAAGCTTATGTCGATGACAACCATCGGCCTTACAAAAACATACGgtaagtatctcccttcttcttgggcgtcggttctaagtaccttcttgacag---------------------------------------------------

upper sequence: Vv19s0027g01660.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EFJ33268 (Selaginella moellendorffii), 5'ss of exon 5
GTTTTTGGTGAGGTTGCAGAAGGGCTTGAGACACTAACGAGGATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttcacttttgtttatatttaatttaatgatattttttctccttttgtattctatcatatgcgacatgaactaaaaatccctcctattttgacag
 ||||||| ||||| || |||||  |||| || || ||||||||||||||||||||||| ||||| ||     | || || ||||| || ||||  || || |  || ||  |       |   |  ||  |     | |                                                    
ATTTTTGGGGAGGTCGCGGAAGGTTTTGAAACTCTGACGAGGATAAATGAAGCTTATGTCGATGACAACCATCGGCCTTACAAAAACATACGgtaagtatctcccttattcttgggcg--tcggttctaagtacctgcttgacag-----------------------------------------------

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|351013338|gb|FQ425043.1|FQ425043
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351056299|gb|FQ454160.1|FQ454160
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351019880|gb|FQ439697.1|FQ439697
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|349829098|gb|FQ419630.1|FQ419630
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351021566|gb|FQ429670.1|FQ429670
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|349828467|gb|FQ417209.1|FQ417209
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351029259|gb|FQ436653.1|FQ436653
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351015245|gb|FQ445529.1|FQ445529
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|352786284|gb|FQ478895.1|FQ478895
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351014040|gb|FQ434192.1|FQ434192
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|349824097|gb|FQ417484.1|FQ417484
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351014258|gb|FQ434847.1|FQ434847
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351019573|gb|FQ439390.1|FQ439390
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351030963|gb|FQ438999.1|FQ438999
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351030959|gb|FQ438995.1|FQ438995
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351015056|gb|FQ444345.1|FQ444345
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351052152|gb|FQ450722.1|FQ450722
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|351036687|gb|FQ457400.1|FQ457400
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
EST: gi|349832490|gb|FQ421051.1|FQ421051
EST:     ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCG                         AATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT
genomic: ATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttca ... attttgacagAATCAAACACACTTATATATTGGATGATCCTTTTGGTGATCCTTCCCAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTTTGGTGAGGTTGCAGAAGGGCTTGAGACACTAACGAGGATAAATGAAGCTTATGTGGATGATAAAGGGAGACCATATAAAAATATCCGgtttgtttcacttttgtttatatttaatttaatgatattttttctccttttgtattctatcatatgcgacatgaactaaaaatccctcctattttgacag

- - - - - - - - - - - - - - - - - - - - - - -  TGAAGC