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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgtaattggttttcccctcaaattattgtgaagattgcgggttccggtgctcaaagttgtttcaaattctttgattgatttttatagtttttgatcataag...

Basic information

species Vitis vinifera
transcript Vv06s0009g03750.t01
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GRMZM2G141258_T01 (Zea mays), 5'ss of exon 14
GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgta-attggttttcccctcaaattattgtgaagattgcgggttccggtgctcaaagttgtttcaaat-tctttgattgatttttatagtttttgatcataag
||||||||  | ||||||||| |||| ||||| || || || || ||||||||||| ||||||||||||||       |||    |  | ||| |       ||      |  |    |  | ||  | ||   | |   || | || | | |||    |  ||      
GAATTCAGCACTAAGAACAAGCTGCTTATCACGGGAACACCTTTGCAGAACAGTGTGGAAGAGCTTTGgtacggcatcttttatgtgcagttaatagttgacttatattatatgtgaat--atgtcatctcttgtgtggatgttggaatataatataagtgaattgctca

upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GRMZM2G010342_T01 (Zea mays), 5'ss of exon 13
GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgtaattggttttcccctcaaattattgtgaagattgcgggttccggtgctcaaagttgtttcaaattctttgattgatttttatagtttttgatcataag----
||||||||  | ||||| ||| |||| |||||||| || || || ||||||||||| |||||||||||||| | | | ||    |  | ||||  |    |       ||    ||    | ||| | |   |||  |   | || || ||   ||||  |     |     
GAATTCAGCACTAAGAATAAGCTGCTTATCACTGGAACACCTTTGCAGAACAGTGTGGAAGAGCTTTGgta-tggatctttatgtggagttataatatctaacttatattata-tgtgatatgttatcttttatttat--gtggaattataatattttgaaaagcgaaagag

upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA14G03780.1 (Glycine max), 5'ss of exon 14
GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgta--attggttttcccctcaaattattgtgaagattgcgggttccggtgctcaaagttgtttcaaattctttg-attgatttttatagtttttgatcataag-
||||| ||  |||||||||||||||| ||||| ||||||||  ||||||||||||| ||||| || |||||  |||    ||  |||   ||  |||      |||  |     |   || | |  | ||    |||  ||| || |||   | |   |     | || |  
GAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATGgtatcattaacattttcctttcatatttg----acttgtcgaaaaggaaacttacatcttttgtggatttgttgtatggataagtgttaataaatgttattact

upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA02G45000.1 (Glycine max), 5'ss of exon 14
GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgta--attggttttcccctcaaattattgtgaagattgcgggttccggtgctcaaagttgtttcaaattctttg-attgatttttatagtttttgatcataag-
||||| ||  |||||||||| ||||| |||||||| |||||  ||||||||||||| ||||| || |||||  |||    ||  |||  |||  |||   |  ||         |   || | |  | ||     ||   || ||| |||  ||| ||| |     ||||| 
GAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATGgtatcattaacattttcctttaatatttg---actttttcaaaaaggaaacttacatcttttgtgggtttgatggatttattaatattgttgtatgg-ataagt

upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: AT2G13370.1 (Arabidopsis thaliana), 5'ss of exon 15
GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgtaattggttttcccctcaaa-----ttattgtgaagattgcgggttccggtgctcaaagttgtttcaaattctttgattgatt--tttatagtttttgatcataag
||||| ||  | |||||||| ||||| || |||||||||||| ||||||| ||||| ||||||||||||||     | ||||| |   |     ||  | || |||| ||   ||    |  |     ||  |   ||| ||   | |      |||||  | ||||        
GAATTTAGCACGAAGAACAAATTGCTTATTACTGGTACTCCACTACAGAATAGTGTCGAAGAGCTTTGgtatgctttcttccctttttaagccctttctctggagatggccttttgtactctttcggattaatattaatcctgaaacttgcaagtttatgttctttgt-------

upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: PP1S317_10V6.1 (Physcomitrella patens), 5'ss of exon 15
GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgta-----------attggttttcccctcaaat-tattgtgaagattgcgggttccggtgctcaa-agttgtttca---aattctttgattgatttttatagtttttgatcataag--------------------------------------------------------------------------
||||||||  |||| |||||| ||||| | || || ||||| || ||||||||||||||||| ||||||||           ||| ||      |  |  | ||||  |  ||    | |  ||  ||| ||  ||   | |||   |    | || | || |  | ||  ||    || ||                                                                            
GAATTCAGCACCAAAAACAAGGTGCTGGTTACAGGAACTCCGTTGCAGAACAGTGTTGAAGAACTTTGgtatgtaaagctagattagtccctttcctatttctattcagctgaccttgtgacccc-tgcccagtagcaatatcattgaggattctgctcgaatgatgtaccttcatttcgtacaatgactttttccacttcactgatctattgtatctgatcatgttatatgtcgtgacgatggtctttgttgctcag

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTGgtaattggttttcccctcaaattattgtgaagattgcgggttccggtgctcaaagttgtttcaaattctttgattgatttttatagtttttgatcataag

- - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcccctc