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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagtctgggcttctcacaacgtgtgttacag

Basic information

species Selaginella moellendorffii
transcript EFJ13603
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagtctgggcttctcacaacgtgtgttacag----------------------------------------------------
|| ||||| || ||||||||||| ||||| |||||||||||||| || || || ||||| || || || |||||||||||  ||||||| ||||| ||||||| || || |  | | | ||||| | |           ||||                                                        
GTGGAAGGGACAATTCAACAGCTATTTGAAGGTCATCATATGAATTATATTGAGTGCATTAATGTTGACTACAAATCTACAAGGAAAGAATCATTCTATGgtaggt-gacaaggtgaaatctggaccttgtttctttattgtttttatctattcatcatgattgtagatttatcatgtattttcgtaactcttttctag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgag--tagtctgggcttctcacaacgtgtgttacag----------------------------------
||||| ||||| || ||  || | ||||| || |||||||||||||| |||||||||||||| || || || ||||| ||  | || ||||||||||||||||  || || |  |   |   |     | || | |  ||   || |                                    
GTTGAGGGAACTATACAGAAGTTATTTGAAGGGCATCATATGAACTATATCGAATGCATCAATGTGGACTATAAATCAACTAGAAAGGAGTCATTTTATGgtactttcatgtacacactgaacctatatgctta-attgtaccttgccacttgattctaatttagttttgcatatgcttgcag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: GLYMA10G23680.1 (Glycine max), 5'ss of exon 3
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatg----ttgatattgagtagtctgggcttc-tcacaacgtgtgttacag-----------------------------
|| ||||| || || || ||  | ||||| || || ||||||||||| || |||||||| || || ||||| ||||| ||  ||||||| |||||||||||||||    ||    || || | | |   || | | |   | | | ||  |                              
GTGGAAGGCACTATACAGCAATTGTTTGAAGGACACCATATGAACTATATTGAATGCATAAATGTGGATTATAAATCAACAAGGAAAGAATCATTTTATGgtatgcatttttgcctttaggattgtttactacattattgcatatcttgaaccttatagaatattggatattttattatag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: GLYMA14G04890.1 (Glycine max), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatatt--gagtagtctgggcttctcacaacgtgtgttacag----------------------------------
||||| ||||| || ||  |||| ||||| || ||||||||||| || |||||||||||||| || || || ||||| ||  | || ||||||||||||||||  || || |   || |         | || | |  ||   || |                                    
GTTGAGGGAACTATACAGAAGCTATTTGAAGGGCATCATATGAATTATATCGAATGCATCAATGTGGACTATAAATCAACTAGAAAGGAGTCATTTTATGgtactttcatgtacagactgaagctatgtgctta-attgtaccttgccacttgattctaatttagttttacatatacttgcag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: GLYMA20G11300.1 (Glycine max), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagtctgggcttctcacaacgtgtgttacag--------------------------------------------
||||| ||||| || ||| || | ||||| || || |||||||| ||||| ||||||||||| || || |||||||| ||  | || ||||||||||||||||  |   |||   | | | ||   |       | || |  | |                                              
GTTGAGGGAACTATACAAAAGTTATTTGAAGGACACCATATGAATTACATTGAATGCATCAATGTAGACTACAAATCAACTAGAAAGGAGTCATTTTATGgtacttccttat---gcattttgaattcaattatatgtttagttcttctttgttatgtaattctaatttagtttttgcatatgcatgttag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: GLYMA13G16170.1 (Glycine max), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgta------------tgttgatattgagta---gtctgggcttctcacaacgtgtgttacag-------------------------
||||| ||||| || ||| |  | ||||| || || |||||||| ||||| ||||||||||| || || |||||||| ||  | || ||||||||||||||||            | ||||  |  | ||   || | |   |  |      ||| || |                           
GTTGAGGGAACCATACAAAAATTATTTGAAGGGCACCATATGAATTACATAGAATGCATCAATGTAGACTACAAATCAACTAGAAAGGAGTCATTTTATGgtacttccttatgcattttgaattcaattatatgttttgttcttccttgttatgtatttctaatttagttttgcatatgcatgttag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagt--ctgggcttctcacaacgtgtgttacag------------------------------------------------------------
|| || ||||| || ||| |||| ||||| ||||| || ||||| ||||| || ||||| || || |||||||||||||| |||||||||||||||||||||||||| || |  |  |||  |    |||||     |     |||  |                                                            
GTGGAGGGAACAATACAAAAGCTATTTGAAGGTCACCACATGAATTACATTGAGTGCATTAATGTAGATTACAAATCTACACGGAAAGAGTCATTTTATGgtatgtt-atgtgaaacagtaacccatcttctgttgtctgaatttattggaagctaacatattaataatatcaaactaactttacagctgtgtctttgacttattccag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagtctgggcttctcacaacgtgtgt-tacag----------------------------------------------------------------------------------------------
|| || ||||| || ||||| ||||||||||| || |||||||| ||||| || ||||| || || ||||  |||||||| |||||||| |||||||| |||||  | ||||  | || ||     || ||  |   | | | ||||                                                                                               
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacatta-tcactctttgtcttattctatttctacatttgcactcggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatg---ttgatattgagtagtctgggcttctca--caacgtgtgttacag----------------------------
|| || || || || || ||| | ||||| || || |||||||||||||| ||||||||||| || || |||||||||||  |||| ||||||||||||||||     || ||||| | | ||        || |   |  || ||||                                
GTGGAGGGCACTATACAGCAGTTATTTGAAGGGCACCATATGAACTACATTGAATGCATCAATGTGGACTACAAATCTACAAGGAAGGAGTCATTTTATGgtacttattttatattta-tggttgaaatgcctgatttagtgtctgtttttcattgcaaaataaattgtttgtgtggcag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagt--agtctgggcttctcacaacgtgtgttacag---------------------------------------------------------------------------------------------
|| || || || || || ||| | ||||| || || |||||||||||||| || |||||||| || || |||||||||||  | || || |||||||||||||| |   | |||  |  ||  |    |  |   | |  |   | |                                                                                               
GTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAATCATTTTATGgtat-tcatttttggttcaagcttacattctttgtagctaggcattcgctattaatgggaatgcatgatacttgaactatatatgtcctaatataaaaagaaaggaaaaaaaatgaactgcatttttatttttgcatggcag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatg--ttgata--------ttgag-tagtctgggcttctcacaacgtgtgttacag------------------------------------------
||||| || || |||||||| || ||||| |||||||||||||||||||| || || ||||| || || ||||| || || || ||||||||||||||||||| |  || | |        ||||| |||  ||||  |||    | |||   |  |                                           
GTTGAGGGCACAATTCAACAACTGTTTGAAGGTCATCATATGAACTACATAGAGTGTATCAATGTTGACTACAAGTCAACACGCAAAGAGTCATTTTATGgtacggtttcacagtttctgtttgagatagggtggggatcttcgtatgtgatcttaatttattacgtaataaattattcattgaccgttgtctgagttga

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: PP1S104_2V6.1 (Physcomitrella patens), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagtctgggcttctcacaacgtgt-gttacag---------------------------------------------------------------------------------------------
|| || || ||||| ||| | |||||||| || ||||||||||| || |||||||||||||| |||||||  || || || ||||| ||||| | ||||||||   |  |  ||| | |  ||    ||| |    ||   |  |||                                                                                              
GTGGAGGGGACGATACAAAATCTTTTTGAAGGCCATCATATGAATTATATCGAATGCATCAATGTCGATTTTAAGTCCACTCGGAAGGAGTCCTATTATGgtacacttcttctgacttgattga--ctctaatgttgtcccgagacaacactgggcatgtggcttatcatggtcgggctttgttgatcttccgtacgctgctagatttcactttaataatatgtgaagtaaacgttggcag

upper sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 7
GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagtctgggcttctcacaacgtgtgttacag-----------------------------------------------------
|| || || || || || || || || || || ||||| ||||||||||| || |||||||| || ||||| ||||| || ||||||||||| || ||||||| |   ||   |   |   | |       |    |  | | |||                                                      
GTCGAGGGCACAATCCAGCAACTGTTCGAAGGGCATCACATGAACTACATAGAGTGCATCAATGTTGATTATAAATCAACACGGAAAGAGTCTTTCTATGgtacgactatgcagttgaagttagaagcaggatggagactttgacaatcaagaatgattctttattttgtttcattgaacatctgtcttagaaagaggag

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: 33 (upstream exon), 34 (downstream exon)
Score: 3

GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgat ... tgtgttacagATTTGCAATTGGATGTCAAGGGCTGCAAGGACGTGTATGCGTCATTTGACAAGTATGTGGAGGTTGAGAAACTTGAGGGGGATAATAAGTACCATGCCGA




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