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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctcttgtgtctgaattttgtggtttattgattacatactattattagatagagttgtctgctatcttatttt...

Basic information

species Vitis vinifera
transcript Vv04s0008g05690.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA04G06960.1 (Glycine max), 5'ss of exon 1
AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctcttgtgtctgaattttgtggtttattgattacatactattattagatag-agttgtctgctatcttatttt----
|| ||| | || ||||||||||| ||||||||| ||||||||||||||||||||||||||||||| ||||| |||||||| || |||||||| ||| ||||| |   |   | || |   | | |  ||| || |   |   || ||||    |||   |      |||  |||| ||  || | | | || | || |||     
AAGGATTTGCTGAAGAAGAGGAAAATTACGGGTCTGTGCATCAAGAGCAGGAGGTTTCAGATTGGTAATCGGGATTGTCGACTTATTGTTTACCCTAGAGgtgtgcaatgtttttgcccggcaaa--tcttttatcgtt---ttctgtgcaccatttgcttaggcttatagttagctatcagatatatactgtgttgtttgtgaa

upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA06G07050.1 (Glycine max), 5'ss of exon 1
AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctcttgtgtctgaattttgtggtttattgattacatactattattagatag-agttgtctgctatcttatttt----
|| ||| | || ||||||||||| || ||||| |||||||||||||||||||||||||||||||| ||| | |||||||| || |||||||| ||| ||||| |   |   | || |   | | |  ||| || |   |   || ||||    | |   |      |||  |||| |   || | | |||| | || |       
AAGGATTTGCTGAAGAAGAGGAAAATCACGGGCTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGCAATAGGGATTGTCGACTTATTGTTTACCCTAGAGgtgtgcaatgttctttcccggcaaa--tcttttatcgtt---ttctgtgcaccacttgcttaggcttatcgttagctgtcagatatttgctgtgttgtcagtgag

upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: AT2G25320.1 (Arabidopsis thaliana), 5'ss of exon 1
AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctcttgt---gtctgaattttgtggtttattgatta-catactattattagata----gagttgtctgctatcttatttt-----------------------------------------------
|| ||||||||||||||||||||||| || ||| | |||||||| || | ||||||||| |||||||| || |||||||| || ||||||||||| ||||||||   |   |  || ||| |    ||     |       || |        | |  |  | |  || || || ||   |     ||| |||||| |  ||   |||                                               
AAGGATCTTCTAAAGAAGAGGAAGATAACAGGTCTTTGCATCAAAAGTAAGAGGTTTCAAATTGGGAACCGGGATTGTCGACTTATTGTTTATCCCCGAGgtatgtaagtgtactagattatctgttttatacggtagacatggaaccaacaatctccttttcaatattctgtttttccttcctatgagctgtctgattgctgcatttgtagtgttgaatgtctgaactgatggtcttactcttaatggcctcag

upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: AT2G25330.1 (Arabidopsis thaliana), 5'ss of exon 1
AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctc-ttgtgtctga-attttg-tggtttattgattacatactat--tattagataga-gttgtc-tgctatcttatttt------------
   ||||||||  ||||||||||||| || ||| | | |||||| || | ||||||||| |||||||| || |||||||| || ||||||||||| |||||||| ||||  |   ||    |||| ||||| |||  ||| |  || || || |||||    || | |||||  | |  | |  |  ||||  |  || |||| | |            
GTTGATCTTCTTGAGAAGAGGAAGATAACCGGTCTTTACATCAAAAGTAAGAGGTTTCAAATTGGGAACCGGGATTGTCGACTTATTGTTTATCCCCGAGgtat-gtaagttcacac----tagatttctcattgcatcttatgttatgctgttttatatggtagagactataatgtcggttttatattgttgttgtaccttactcttgatggtctcag

upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S119_72V6.1 (Physcomitrella patens), 5'ss of exon 1
AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctcttgtgtctgaattttgtggtttattgattacatactattattagatagagttgtctgctatcttatttt-----
||||| ||||| ||||||||||| |||||||| ||||||||||| ||  |||| || ||  | || ||||| |||||||| || || || ||||| ||||||| || |     ||   | || | ||    |||||  |     |  | || |    | | |||      ||| |  |    ||| |||      |   |     
AAAGACCTTCTGAAGAAGAGGAAAATTACGGGGTTGTGCATCAAAAGTCGGAGATTCCAAGTCGGTAATCGAGATTGTCGGCTCATCGTGTATCCGCGAGgta-cggagcgcattctctggtcg-ctgtgattgtggatcgccgtccttgtgtgc--aatgcatgagcgaattcgg-acgtctgtgtgcacctcgaacatggggt

upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ25012 (Selaginella moellendorffii), 5'ss of exon 1
AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctcttgtgtctgaattttgtggtttattgattacatactattattagatagagttgtctgctatcttatttt
|||||||| || |||||| ||| ||| |||||  | ||||| ||||||| | | |||||  |||| ||||| || |||||||| ||||| |||||||||||||| |||| |||||  ||    |   |      || |    ||||||    |   |                                           
AAAGATCTGCTGAAGAAGCGGAGGATCACGGGGCTTTGCATTAAGAGCAAGCGATTTCAAGTTGGCAATCGGGACTGTCGCCTTATTGTCTATCCTCGAGgtat-gtaa-ctgtt-tatctctgctctacgacctgacgtgtttttgtaaaatgcag-------------------------------------------

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGATCTTCTAAAGAAGAGGAAGATTACGGGTTTGTGCATCAAGAGCAGGAGGTTTCAGATTGGGAATCGTGATTGTCGCCTGATTGTTTATCCTCGAGgtatcgtaaactgttacattgtagacttctcttgtgtctgaattttgtggtttattgattacatactattattagatagagttgtctgctatcttatttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agatagag