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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatctaagtcttttccaatcaaacttacattactccaaacag

Basic information

species Selaginella moellendorffii
transcript EFJ13722
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA19G45140.1 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtact-------gccgacttcatctaagtctt---ttccaatcaaactta-cattactccaaacag----------------------------------
| || || || || || ||  | || ||||| || ||||| |||||||||||||| |||||||||||||| ||||| ||||| |||||||| || |||||||  |       | | | |  ||     | ||   ||    ||| ||| |   ||||| || |                                     
GCGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgttttctgatttggctattatatgatgattttcactttagttcatactcagttttactacagatgttcactgttaagtcaagaaagtatctccaagcatg

upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA16G01810.1 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatc-------taagtcttttccaatcaaacttacattactccaaacag---------------------------------------
|||| ||||| || || ||  | || ||||| || ||||| |||||||||||||| ||||||||||| || ||||| |||||||||||||| || |||||||   |  || || ||         | |||| |  || ||||  |  || |  | | |  |                                        
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAACAGgt-tggttgattttataatgaaagcatgtctctaacagtcaacgtgccagttttgccataattatgatgcattcaaaatgcccttttaaattcaattttcg

upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA03G42370.2 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatc--taagtcttttccaatcaaacttacattactccaaacag--------------------------------------------
|||| || || || || ||  | || ||||| || ||||| |||||||||||||| |||||||||||||| ||||| ||||| |||||||| || |||||||  | | || ||      ||  |  ||| || |  |  | | | |       || |                                            
GTGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgtttt-ctgatttggctattatatgattttcactttagttcatactcagttttactgcagatgttaagtcaagaaagtatctcactttagttcatcaagtg

upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA07G05220.1 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatc-taagtcttttccaatcaaacttacattactccaaacag---------------------------------------------
|||| ||||| || || ||  | || ||||| || ||||| |||||||||||||| ||||||||||| || ||||| |||||||||||||| || || ||||   |  || || ||  | ||    |  |  |  ||      |   |||| |  |                                             
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAATAGgt-tggttgattttattgtgagagcatgtctctgcaatgcgagtctttccataatgatgatgcattccaaatgccctttcaaattcattttttcttgtaag

upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: Vv11s0016g00230.t01 (Vitis vinifera), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttca---tctaagtcttttcca--atcaa--acttacattactccaaacag---------------------------------------------------------------------
|||| ||||  ||||| ||| | || ||||| || ||||| |||||||||||||||||||||||||| || ||||| |||||| ||||||| || |||||||      ||   ||   | ||  |||| | ||   |  |   |  || | | |   ||                                                                        
GTGGAGACAGAGAAGTTCAACGTACCATGCTTGAAATTGTAAATCAGCTTGATGGTTTTGATGCTCGAGGAAACATCAAAGTTATGATGGCAACAAACAGgttagttggaaaccaatctatagttcttattcactgttgatgtcccacttaattttcaatcctttcttttgccaatgaacttaattgatttgttttttttctttcactatcttaattttgaccttttaaag

upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgta---ctgccgacttcatctaagtcttttcca----atcaaacttacattactccaaacag--------------------------------------
|||| ||||| || || ||  | || ||||| |||||||| |||||||||||||| ||||||||||| || || || |||||| | ||||| || || ||||      ||   ||||||   | | || ||            ||  || |  |  |||  |                                      
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat

upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: PP1S49_256V6.1 (Physcomitrella patens), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatctaagtcttttccaa--tcaaacttacattactccaaacag-------------------------------------------------------------------------------------------------------------------------------
| || || ||||| || ||||| || |||||||| || ||||| || || |||||||||||||| ||||| || |||||||| |||||||| || ||||||||         |     | ||   || |||  || |   | |  | || | |  ||                                                                                                                               
GAGGTGATAACGAGGTTCAAAGAACAATGCTCGAAATAGTCAACCAACTGGATGGTTTTGATGCCCGTGGTAATATTAAAGTATTGATGGCAACTAACAGgtaagattcctctttcgaatgttagttgcaacgtctatgctgctctgcttcta-tagcctgagtctaggatatgtagatatgtatggcgcaagaatcaatgaaagtagatatacccgcacctgactgattcttgtgaatctagaaagcttagtcaccttacgaaagcaagtgtggtttgtatag

upper sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: PP1S152_13V6.2 (Physcomitrella patens), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtac--tgccgacttcatctaagtcttttccaatcaaacttacattactccaaacag-------------------------------------------------------------------------------------------------------------------------------------------
| || || || || || ||||| || ||||| || || |||||||| ||||| ||||| ||||||||||| || || ||||| |||||||| ||||| |||||   | ||    | |  ||  | | ||  | | ||   | |  | || |                                                                                                                                                 
GGGGTGATAATGAGGTTCAAAGAACAATGCTTGAAATCGTCAATCAACTTGACGGTTTCGATGCTCGTGGTAATATCAAAGTATTGATGGCAACGAATAGgtaaaatccctcgctgacatatttatcttgaagttaatggtgctctgcttctgtggagttggtgtaggatctgtttgtggacgttgcgtcagaattatcagaggtgtttgtacacccatcaaatcaataatgtaattcaagcgattttagacagctcaaacattcgccttgtaaacgaacatgtggttttttacag

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: 34 (upstream exon), 35 (downstream exon)
Score: 31

GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTTGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAAGGTGGAGTTCGGACTCCCAGACCTCGACAGCAGAACTCAGATCTTCAAG




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