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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac...

Basic information

species Selaginella moellendorffii
transcript EFJ10059
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os03g55080.1 (Oryza sativa), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac-
|||  ||  |    ||||||||||| |  ||   | | || ||||||||| ||||||||||||| || |||||||| |||||||||||||||| ||||||||| |  ||  |    || || |   |                   |  |     ||   |   ||   |    |    |   |   | | |  || |   
GGTTCGCGTTCATGACCAAGAGCGAGATTGACCACCTCGAGGATGGCTACAGGTGGAGGAAGTATGGGCAAAAGGCGGTCAAGAACAGCCCATTCCCAAGgtgagcgcgtgacaa-tcgatcgatcgcttccttctgtttctgtccatcccctcgatcgatcatatctcgtgtgtgttctcagctctcacaagcatggggg

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os01g53260.1 (Oryza sativa), 5'ss of exon 1
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac-
|||  ||  | || || | ||||||||| || ||| ||||||| |||||||| |||||||||||||| || ||||||||||||||||||    |||| |||| ||  ||||         |  |          | | |          |||       | | ||||   || | |       | | ||  |   | | | 
GGTTCGCGTTCCAGACGAGGAGCGACAACGACATCCTGGACGACGGCTACCGATGGAGGAAGTACGGGCAGAAGGCCGTCAAGAACAGCAAGCACCCCAGgttcgatcggctaattaagttcttcgatctctctacatattttcgatttcgaccggctaggttaattcatgctaataacaattctaactt-attgttgtct

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os01g47560.1 (Oryza sativa), 5'ss of exon 4
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgag-gaatgcgt-tgaattggggccattggattgaccacctccacgatcgac----------------------------------------------------
|||  ||  |    |||||||||||    ||   | | || || |||||||||||| | |||||||| || |||||||||||||||||||||||||| |||| |||| |    |   |      |    |   | ||     ||    ||| | | | | ||       |  |   ||| |  |  | |   | ||  || |                                                    
GGTTCGCGTTCATGACCAAGAGCGAGGTCGACCACCTCGAGGACGGCTACCGGTGGCGCAAGTACGGCCAGAAGGCCGTCAAGAACAGCCCATACCCCAGgtacgtatgtacagttacacacacgtatagtacgtgactcgtagctgtgcgcgtgtacgtgtaccggccgcagtagttgcaccggacgcgcgcgcgcgcggcagaatgcgatgattgcaatgatctgatatatacggggttgatttttttgcag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os11g29870.1 (Oryza sativa), 5'ss of exon 1
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatg-cgttgaattggggccattggattgaccacctccacgatcgac-------
|||  ||  | || ||    ||| |    || ||| | ||||| ||||||||||||||||||||||| || |||||||||||||||| |  || ||||||||  ||        | | |||     |   |   |   |  ||   |  |    |||   | | | ||  | | |||  |     |  || |    |   |       
GGTTCGCGTTCCAGACGCGCAGCCAGGTCGACATCCTCGACGACGGCTACCGGTGGAGGAAGTACGGCCAGAAGGCCGTCAAGAACAACAAATTCCCAAGgtttgt--------cattcatgtcatgtacatccatccatggattaattctccaaataatgatcattttagtcaattacacctctcttcttctttcttatctttctta

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os01g43650.1 (Oryza sativa), 5'ss of exon 2
GGTATGCCATACAA-ACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacg-----------gcaggcctccattgtg---agaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac-------------------------------------------------
 |  || | | |   |||||||||||    ||   | | || || |||||||||||| | |||||||| || ||||| |||||||||||||||||||| |||| |  |              ||  |||  |||      ||  |    ||             ||  | || |  ||     | |||||   ||||     | | | | |   |                                                 
-GCGTGGCGTTCCTCACCAAGAGCGAGGTTGATCACCTCGAGGACGGCTACCGGTGGCGCAAGTACGGCCAGAAGGCAGTCAAGAACAGCCCATACCCGAGgtacacatctatatacatgtacaaaccttaatttcacccagttgttgtagcacatacatatatcgtagtataccatgttactgtgccatacaattgcatggcacgatggtgttcaagtactccaatttcaaaatgcaattcaattcgaattcgaatattgcag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os05g49100.1 (Oryza sativa), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaat-gcgttgaattggggccattggattgaccacctccacgatcgac----
|||  ||  |    |||||||||||    ||   | | || ||||||||||||||| | |||||||| || || |||||||||||||||||||  || |||| | |      |   |  ||| | ||  |    |         |           |   |||  ||       || ||| ||   | |  |        |    
GGTTCGCGTTCATGACCAAGAGCGAGGTCGACCACCTCGAGGATGGCTACCGGTGGCGCAAGTACGGCCAGAAAGCCGTCAAGAACAGCCCATTTCCCAGgtacttc-----gttttatattataagtcgttttaattttttttaattaaattttcttaagtttgatcaaatttataggaatgtttagcaacgtctatagcacca

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os01g40260.1 (Oryza sativa), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCG-ACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccatt-gtgagaggagagagagagagagag-aggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac
   ||  | | |||  | ||  || |   |||  |  ||||||| |||||||||||||||||||||||  | |||   ||||||||||||||  |||||||||   ||    |  | |||||   |      |  |   |   ||||| |      |    ||         ||    | ||| | |   |   |||  |   
-AGATCGCGTTCAAGACGAGGTCGGAGGTGGACGTGCTGGACGACGGCTACCGGTGGAGGAAGTACGGCAAGAAGATGGTCAAGAACAGCCCCAACCCAAGgtaattagttaacccatccatccatccttccatcgctcgccggagagcacatctcgccgccgccacgccatggttggttgatcggc-gtccgtacgtgcag-

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os05g50610.1 (Oryza sativa), 5'ss of exon 2
GGTATGCCATACA-AACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggat-tgaccacctccacgatcgac-
 || || | | ||  |||||||||||    ||   | | || || |||||||||||| | |||||||| || || ||||||||||||||| | ||||||||||  |   | ||    | || |   | | |    |         | |   |  | |||| |  | |||     |   | |   ||  | |   | |    | 
-GTGTGGCGTTCATGACCAAGAGCGAGGTCGACCACCTCGAGGACGGCTACCGGTGGCGCAAGTACGGCCAGAAAGCCGTCAAGAACAGCTCCTACCCAAGgtcagctagccaaattttcacttgcatatgcattattctccatcataattg--gcatgcatatatttgacagaagcagctaccacagcattagcaacaagct

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G111354_T01 (Zea mays), 5'ss of exon 1
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagag-agagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac
|||  ||  | || || | |||||  || || ||| ||||||| ||||||||||||||||||||||| || ||||||||||||||||||  | |||| |||| ||| |||    || || |  | |    |    | |     |   |  | | |   |||    || |       || |   || | ||    ||  || 
GGTTCGCATTCCAGACGAGGAGCGTAAACGACATCCTGGACGACGGCTACCGGTGGAGGAAGTACGGGCAGAAGGCCGTCAAGAACAGCGAACACCCCAGgttcgttcggttttcccccctcatcatttcattccacattccaattcaaaccacgt-cgcggacgatcgatttgcatgaacatacaaacttgctgaaagat

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G151763_T01 (Zea mays), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac-----
|||  ||  |    |||||||||||    ||   | | || || |||||||||||| | |||||||| || |||||||||||||||||||||||||| |||| ||||    | |  |  ||||   |   | |          || |   | |  ||||   ||    |    ||  | ||  ||  || |   |||  |     
GGTTCGCGTTCTTGACCAAGAGCGAGGTCGACCACCTTGAGGACGGCTACCGGTGGCGCAAGTACGGCCAGAAGGCCGTCAAGAACAGCCCATACCCCAGgtacgtat---atgtatatattgcaggcatacattacatacatgatacatg-gacatgcacagagcacgtat-atacggttaccctactgctgcatctgcactgc

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM5G812272_T02 (Zea mays), 5'ss of exon 2
GGTATGCCATACA-AACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac---------------------------------------------
 | ||  | | ||  |||||||||||    ||   | | || || |||||||||||| | |||||||| || |||||||||||||||||||||||||| |||| |||    || ||    |  |   |   | | ||  | |   |  ||| |      |||  |    |  ||  |       ||  ||||| ||   ||                                             
-GGATCGCGTTCATGACCAAGAGCGAGGTCGACCACCTCGAGGACGGCTACCGGTGGCGCAAGTACGGCCAGAAGGCCGTCAAGAACAGCCCATACCCCAGgtacgtggtacatgc----acagcacgtatatacagctatacctactggctactg-cacgtatatacagcacctctcttcgatcctactccatgacgtacggtacggtagacattgctgcatgagctaatggtgatggcgtgcag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G015433_T01 (Zea mays), 5'ss of exon 1
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac
|||  ||  | || ||   |||||| || || ||| | ||||| ||||||||||||||||||||||| || |||||||||||||||| | |||  |||||||   |       | |||  |  |||       ||      |    | || ||        ||   |||       | | ||    | | ||        
GGTTCGCGTTCCAGACGCGGAGCGAGAACGACATCCTCGACGACGGCTACCGGTGGAGGAAGTACGGGCAGAAGGCCGTCAAGAACACCGCATTTCCAAGgttgatc------gtctctttgttgatgctcatgaagtcatgtcttatgctagcttcaatctgctgtggaaatgacgcactgtgggcatgcag-------

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM5G863420_T01 (Zea mays), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgt--------gcgtacggcaggcctccattgtgagaggagagagagagagagagaggcg--aggaatgcgttgaattggggccattggattgacca-cctccacgatcgac------------------------------------------
||   ||  | |  || | |   || |  |||||| ||||||| ||||||  |||||||||||||||  | ||| ||||||||||||||||  |||||||||           |   | |      ||   | |    ||    ||  ||  ||  |    |  | |  |   | || | |  |||| |    | | ||  | |  || |                                           
GGATCGCGTTCCGGACGAGGTCGGAGATCGAGATCCTGGACGACGGCTACAAGTGGAGGAAGTACGGCAAGAAGTCCGTCAAGAACAGCCCCAACCCAAGgtaactagtaatctgtagtacatgatcacaattactccagtactagctagctaggagtagcactagtaggcgcatttcgcgatattgcagcagctagccatctctctcaatcacagtgtcacacatgacatgcgtggtggtgcgcgcccgcag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G054125_T01 (Zea mays), 5'ss of exon 1
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac------
|||  ||| | || ||    ||| |    || ||| | ||||| |||||||||||| |||||||||| || |||||||||||||||| |   | |||||||| ||||   | | | | |    |   || | ||  | |  |       |  | |  |  || ||    | |   |  | |   |   ||  ||||| |       
GGTTCGCCTTCCAGACGCGCAGCCAGGTCGACATCCTCGACGACGGCTACCGGTGGCGGAAGTACGGCCAGAAGGCCGTCAAGAACAACAAGTTCCCAAGgttcgtata-cggccgtgcgcaattc-agtacagtcaaaatgtttttt-catgcatggttttcaacgacgactgctatactatgc---tcgccgatccatttctgt

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G106560_T01 (Zea mays), 5'ss of exon 1
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac-
|||  ||| | || ||    ||| |    || ||| | ||||| |||||||| |||||||||||||| || |||||||||||||||| |   | |||| |||  |||    |       | | |  | | | |          |       |   ||  | | || ||     | |   ||  |  | |||    ||    
GGTTCGCCTTCCAGACGCGCAGCCAGGTCGACATCCTCGACGACGGCTACCGCTGGAGGAAGTACGGCCAGAAGGCCGTCAAGAACAACAACTTCCCACGgttagtagtttaattaattagttttggtgcacaattcacactcgcacatacatatatatgatcaactgaaatgaatac-ttagctgcttccttcctcttgc

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G018721_T01 (Zea mays), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgc--gttgaattggggccattggattgaccacctccacgatcgac-----------
|||  ||| |    ||||||||||||  |||   | |||| || || ||||| |||||||||||||| || |||||||||||||||||||| | ||| |||| | ||| |    |  |     ||  |   |  |        || |    |      |  | |   | |    |  | || | | |   ||   |||               
GGTTCGCCTTCATGACCAAGAGCGACGTGGACCACCTGGAGGACGGGTACCGCTGGAGGAAGTACGGGCAGAAGGCCGTCAAGAACAGCCCCTTCCCCAGgtacctactggctactgcacgcatggcatctggaactagctctgaaaattaaacccctcaagctagctagctagctctagaatcatcgagtcacggatgagtgtacgtagcag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G145554_T01 (Zea mays), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtga--gaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac
|   |||| | |  |||||||||||   |||   | | || || |||||||||||| | |||||||| || ||||| ||||||||||| || ||||||||||    || |     ||   | ||     |       |      | |   ||  |  |||| |   |       |||     |  |       |     |  
GCGTTGCCTTCCTCACCAAGAGCGAGGTGGATCACCTTGAGGACGGCTACCGGTGGCGCAAGTACGGCCAGAAGGCGGTCAAGAACAGTCCTTACCCAAGgtctccacagtttcacttgttcgttccccacatccatggccattataattgcatgctatgcatcacacaacacacatctagctatcttatcgtatacatg--

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G137802_T01 (Zea mays), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgt-gcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac
||   ||  | |  || | |   ||    ||| || ||||||| ||||||  |||||||||||||||  | ||| ||||||||||||||||  ||||||||| ||  || |   || |||    | | |  |      ||  |     | |    |  ||  | | ||   | ||   | |    ||              
GGATCGCGTTCCGGACGAGGTCGGAGGTCGAGGTCCTGGACGACGGCTACAAGTGGAGGAAGTACGGCAAGAAGTCCGTCAAGAACAGCCCCAACCCAAGgtagctaactgtgtgcgtcccaatttacaacaccacacgactg-----gactgctagcgcactcacttcacgacaactgttctgtcag-------------

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G057116_T01 (Zea mays), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGC-GACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgc----gtacggcaggcctccat-tgtgagaggagagag-agagagagagaggcgaggaatgcg----ttgaattggggccattggattgaccacctccacgatcgac-------------------------------------------------------------------
 | ||    | || | | ||  | ||   ||||||| ||||||| || | |  |||||||||||||||  | ||||||||||||||||||||| | ||||||| |     |||  ||    | ||  ||  |    | |||| ||  ||  | |  |    ||   |       |     |  ||  |   |||     ||| ||    ||                                                                   
-GGATCGGGTTCAGAACGAGGTCAGAGGTGGAGATCTTGGACGACGGATTCAAGTGGAGGAAGTACGGGAAGAAGGCCGTCAAGAACAGCCCAAATCCAAGgtactactatactacacaaatacacatgcaaattaatagagcagctagctaaattcccccaacatgaaagccaagacaagagcaaagagatgaattaatcctcgcaaaacgaaacaaaaataaaaaaagaaatgtttacttcgtcgatgctgatggcttgtgcacatgcccatgtag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G453571_T01 (Zea mays), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac----
|||  ||  |    |||||||||||    ||   | | || || |||||||||||| | |||||||| || || ||||||||||||||||| |  || |||| | |||   |  ||| |||  ||  |     | |             |      |   |  |     |  |  |  ||    ||| | |   ||   |    
GGTTCGCGTTCATGACCAAGAGCGAGGTCGATCACCTCGAGGACGGCTACCGGTGGCGCAAGTACGGCCAGAAAGCCGTCAAGAACAGCCCGTTTCCGAGgtacatac---atacctacataatgctacatatgcgtacccttttttttccctctctttttacacaaaagctctatatatgatgcacgtacg-aattagctagc

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G377217_T01 (Zea mays), 5'ss of exon 3
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctc-cattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac
||| |  | | || ||||  ||||||  |||  |  |||| |||||||||  ||||||||||||||| || ||||  |||||||||||||   | |||||||   | |      | ||  |||    ||   ||     | | |            |||||      |  | |  |     ||         ||||   | 
GGTTTTGCTTCCAGACCAGAAGCGACGTGGATGTACTGGATGATGGCTACAAGTGGAGGAAGTACGGCCAGAAGGTTGTCAAGAACAGCCTCCATCCAAGgtatctgcaatccacgtcatattccatgaatcgatttgtacacaccccatacgtacatgcggcatgctaag-ctttccttctgttggttattacgaattaa

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G377217_T02 (Zea mays), 5'ss of exon 3
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctc-cattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggc--cattggattgaccacctcca--cgatcgac----------------------------------------------------------------------------------------
||| |  | | || ||||  ||||||  |||  |  |||| |||||||||  ||||||||||||||| || ||||  |||||||||||||   | |||||||   | |      | ||  |||    ||   ||     | | |            |||||      |  |    | ||   |||   |   | |    ||   |                                                                                        
GGTTTTGCTTCCAGACCAGAAGCGACGTGGATGTACTGGATGATGGCTACAAGTGGAGGAAGTACGGCCAGAAGGTTGTCAAGAACAGCCTCCATCCAAGgtatctgcaatccacgtcatattccatgaatcgatttgtacacaccccatacgtacatgcggcatgctaagctttccttctgttggttattacgaattaatatgcctggaagctaggagattaattaacaagtaaatcatagatggttaattttatgctatattctagttacatttcgtctctatttatgcag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G101405_T01 (Zea mays), 5'ss of exon 2
-GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtg----cgtacggcag-------gcctccattgtgagaggagagagagaga----gagagaggcgaggaatgcgttgaat-----------tggggccattggattgaccacctccacgatcgac---------------
  |  | ||     |     || |||  | ||| |  | ||||| ||||||   ||||||||||||||| | ||| ||||||||||||||||  | || |||||      ||  | |        ||    | | | |   |  |   |   |       | | || | || || | |  ||           |  |     |||| |||  | |    | | |||                
TTGCGTTCCGAGTGAGGTCGGA-CGAGGACGAGGTACTCGACGACGGCTACAAATGGAGGAAGTACGGAAAGAAGTCCGTCAAGAACAGCCCTAATCCGAGgtgaatttataaagtaattacgcagctgatagtttaatttgcaaaccattaattatatcaaaagccaagagtgagctagatgtgtacatatatatgcgtgctggactgaagaaccttgcaaacgaacgaattggattccag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA08G15210.3 (Glycine max), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagaga-gagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgat--cgac
||| |  | |  | |||| ||||||   |||  |  ||||||||||||||  |||||||||||||||||| || |  || |||||||  |   |||| ||||   |  |     | |  |||   ||             |     |     |   |    |||| |   |   |||  ||||| ||   |   |||   || 
GGTTTTGCTTCAAGACCATGAGCGATGTGGATGTATTGGACGATGGCTACAAGTGGAGGAAGTACGGACAGAAAGTTGTGAAGAACACGCAGCACCCCAGgtatatctgat---ctttaatttaaagcttctctctttttgtttttgctttaatttagaaattgattaaagaatattaaattgatcaaacctttgatgatgat

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA07G36640.1 (Glycine max), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagag-agagagagagagaggc-gaggaatgcgttgaattggggccattggattgaccacctccacgatcgac--------------------------------------------------
| | |||  |    || ||||| ||   |||   | | |||||||||||| | ||| | |||||||| ||||| |||||||| ||||||||  | |||||||     |  ||       ||| |  |   |    |  ||  |  | |     |  |||    | | || |   | ||    |          ||  | ||                                                   
GATTTGCGTTCATGACAAAGAGTGAAGTGGATCACCTCGACGATGGCTACAGATGGCGCAAGTACGGTCAAAAAGCCGTCAAAAACAGCCCTCATCCAAGgtatacccatcaatatataattatttgcacatttcattgatcgtcaaatcttaattaattttgtcactttgattctttcttctcctttttagtactttggatttgggttgggactaataattaaaatatttcttgcggtgcacgcaaaacag

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: AT1G69310.1 (Arabidopsis thaliana), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattg-tgagaggagagagagag---agagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac
| |  ||  |    |||||||| ||   ||| |   | || ||||| || || ||| | || || |||||||| ||||||||||| ||||||| |||||||| ||||    || | ||  ||  |  ||  |       ||   |  || | || |   ||   |   ||||  |   |   ||  |                 
GATTCGCATTCATGACCAAGAGTGATGTGGATAATCTTGAAGATGGATATCGATGGCGTAAATATGGACAAAAAGCCGTCAAGAATAGCCCATTCCCAAGgt-cgtatataagtcatcagtttctttgatcattctcttagttaacggatatgcaacctatatttcttattgttgttgtgatatatag----------------

upper sequence: EFJ10059 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: Vv05s0077g00730.t01 (Vitis vinifera), 5'ss of exon 2
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgt---------acggcaggcctcca--ttgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac--
| | |||  |    |||||||||||    ||     | |||||||| ||| | |||||||||||||| ||||| || || ||||||||||| |  || ||||   |         |     | || |    |  |   |  |       |   |   ||   | | |       || || ||   |   | | | ||  | |   ||   |  
GATTTGCGTTCATCACCAAGAGCGAAGTTGATCATCTTGACGATGGATACAGATGGAGGAAGTACGGCCAAAAAGCTGTGAAGAACAGCCCTTTTCCTAGgtatatcaaatcccgatcttggtccccttattcatttaattattttcttaattatgaagcaaaaggaaaaaaaaaagtgtggaagt--aactaaacattttcttaattttcag

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 37

GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacgg ... gttctttcagGAGCTACTACCGGTGCACGTACACCAAGTGCCACGTCAAGAAGAGGGTGGAGAGATCCTCCAAAGATTCCAGCCTGGTGATCACCACGTACGAGGGCGTT




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTATGCCATACAAACCAAGAGCGACAAGGAGATCATGGACGATGGCTACCGGTGGAGGAAGTACGGACAAAAGGCCGTCAAGAACAGCCCATACCCAAGgtgcgtacggcaggcctccattgtgagaggagagagagagagagagaggcgaggaatgcgttgaattggggccattggattgaccacctccacgatcgac

- - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agagaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaggaatg