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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaagctcatctattataatgatttggatctttattttttctttcttttttttttctcattttag

Basic information

species Selaginella moellendorffii
transcript EFJ05534
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: GLYMA12G34780.1 (Glycine max), 5'ss of exon 17
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaagctcatctattataat--gatttggatctttattttttctttcttttttttttctc----attttag-----------------------------
|| ||||| || || ||  | || ||||||||||| |||||||||||||||||   ||||||||  || || || ||| |||||||||| || |||   | | |||   |   ||||| |     | || |   |   |  |    |  |    ||||||                              
AATAACAGCTTTGAACAATTTTGTATAAACTATGCCAATGAGAGGCTTCAACAACATTTCAATCGGCATCTGTTTAAACTTGAGCAGGAGgtcagcaactatgttaagctttaatttgaacacaaaattgtcagtgtgtaatacaattccaggaattttatttgtgtttaagattgctgggtattttgat

upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 13
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgta---agctcatctattataatgatttggatctttattt-tttctttcttttttttttctcattttag-----------------------------------------------
|  |||||||| |||||| | |||||||| ||||||||||||||  | || ||    || ||||  ||  | |||||  | || ||||| |||   | |      | | | |    ||  |    ||||  | || || |   |        || ||                                                 
AGGAACAGTTTTGAGCAGTTCTGCATAAATTATGCAAATGAGAGATTACAGCAACACTTTAATCGTCATTTATTCAAGTTAGAACAGGAGgtatggatcctgcagagtctgaatgcttcaacaagtattgatgtccttttaaatgaaggaaaatattgaatacctctgaaagctaaatatctgcctatgcacgcggttgatttcag

upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: GLYMA13G35790.1 (Glycine max), 5'ss of exon 16
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaagctcatctatta-taatgatttggatctttattttttctttcttttttttttctcattttag----------------------------------
|| ||||| || || ||  | || ||||||||||| |||||||||||||||||   ||||||||  || || || ||| |||||||||| ||  ||   | | ||| |  | | || || | | |  |||||  | | |  |  || |  |  ||                                   
AATAACAGCTTTGAACAATTTTGTATAAACTATGCCAATGAGAGGCTTCAACAACATTTCAATCGGCATCTGTTTAAACTTGAGCAGGAGgtcggcaactatgttaatctttaatttgaacatgaaattttcagtgtgtaatacttatggtggtatctttatacaaatccaggaatttagtttgtgtatt

upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: GLYMA20G23660.1 (Glycine max), 5'ss of exon 15
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaag---ctcatctattataatgatttggatctttattt---tttctttcttttttttttctcattttag-----------------------------
|  |||||||| |||||| | |||||||| ||||||||||||||  | |||||    |||||||  ||  | |||||  | || ||||| ||| |   | ||| ||   | |    ||     |  ||      |   | | ||   |||| |||    |                              
AGGAACAGTTTTGAGCAGTTCTGCATAAATTATGCAAATGAGAGATTACAACAACACTTCAATCGTCATTTATTCAAGTTAGAACAGGAGgtatgtgccacatataaactgactgcttaataatggatgaagaataggtgcattgcattttatcagccaaactgaaaaaatcacattcaaatttgcaagt

upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: Vv19s0014g03640.t01 (Vitis vinifera), 5'ss of exon 15
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaagctcat-----ctattataatgatttggatctttattttttctttcttttttttttctca---ttttag---------------------------
|| ||||| || || || || || ||||||||||||||||||||||| ||||||  ||||||||  || ||  | ||| | || ||||| ||| ||   |     |||||   |  ||| |  |  ||  |  ||| |        | | |  |   |||  |                           
AAGAACAGCTTTGAACAACTCTGTATAAACTATGCAAATGAGAGGCTGCAACAGCATTTCAATCGTCATCTACTTAAACTCGAACAGGAGgtatgcatctaaactctatttataccattggagttgttggtcattcatgacacgagtatacagaagctttctgaaaattttatcttgattaaaaaatgca

upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: EDP00860 (Chlamydomonas reinhardtii), 5'ss of exon 10
-------------------------------------------AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTG-AGCAGG--ACgtaagctcatctatt--ataatgatttggatctttattttttctttcttttttttttctcattttag-------------------------
                                             |||||| ||||||||||||||||| ||||| || |||||| | || || |||    |                  || || ||| ||  |||     ||  |   |  | |||    || || | |     |   |     |       |     | |                         
GTACATCGCCATCCTGGACATTTACGGCTTTGAGCAGTTTGACCGCAACAGCTTCGAGCAGCTGTGCATCAACTACGCCAATGAGCGCCTGCAGCAGCAGgtgggcggttggactggtggaactgcagctggctacgctgcatcgacgggtcaagaattccatgcatgtgtgccactcgctcacggtaccccgatgcccctggcttacccacctctgtcttcccgcag

upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: PP1S199_21V6.1 (Physcomitrella patens), 5'ss of exon 14
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaagc-tcat-------ctattataatgatttggatctttattttttcttt---cttttttttttctcattttag-------------------------------------------------------------------------------------------------------
|  || ||||||||||| || || ||||||||||||||||||||||| || ||   |||||| |  ||||| || ||  ||||||| || ||| |  | ||           || | ||||    ||   ||| ||||| ||    |  | || | ||    ||                                                                                                         
AGAAATAGTTTCGAGCAACTTTGTATAAACTATGCAAATGAGAGGCTGCAGCAACATTTCAACCGTCACCTTTTTAAGCTTGAGCAAGAAgtatgtgttatgaaagcttagatacagtgatagatatagctatcttttccttaaattaatgttatactggaattgaacccagattagctccttgctgtttccttccgtttttgtggcattcattctacaccagcttgcaaaatacttattctgttcgggttgctttgatgatcatgcag

upper sequence: EFJ05534 (Selaginella moellendorffii), 5'ss of exon 13
lower sequence: PP1S104_215V6.1 (Physcomitrella patens), 5'ss of exon 14
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaagctcatctattataatgatttggatctttattttttctttcttttttttttctcattttag-----------------------------------------------------------------------------------------------------------------------
|  || ||||| ||||| ||||| ||||||||||||||||||||||| || |||  |||||| |  || || || ||  | || || || ||| | | |      |    ||| ||    |  || |        ||| |||||  | |  | |                                                                                                                        
AGAAATAGTTTTGAGCAACTGTGTATAAACTATGCAAATGAGAGGCTGCAGCAGCATTTCAACCGTCATCTTTTTAAGCTCGAACAAGAAgtacgtttaaagggaacttagatatgttggtaaatatagctggcttttctttttatttacgtcaagcacgttacattggatttgggtgaggacagctcttgcttttctcttacttactgcggcgaccgttttctaacggattctaaatgttcacatcttatggcttcttgtgataattatttag

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACAACAGTTTCGAGCAGCTGTGCATAAACTATGCAAATGAGAGGCTTCAACAGTTTTTCAATCACCACCTCTTCAAAATTGAGCAGGACgtaagctcatctattataatgatttggatctttattttttctttcttttttttttctcattttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG