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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatctcgagagagacatgttttgtgtgatgtgaccgtgatcgtgtctcttttgcag

Basic information

species Selaginella moellendorffii
transcript EFJ06739
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgta-atctcgagagagac-atgttttgtgtgatgtgaccgtgatcgtgtctctt-ttgcag----------------------------------
|| ||  | || || ||||| || ||||| ||||| ||||| ||||||||||| ||||||||||| ||||| || || |||| ||  | |    |   |  |||  | |  |   | ||      |||  ||| | | |                                   
GTTCCGAACTTATATTGCATTGGAGATGCCAATGGTAAACTCATGCTTGCTCATGCTGCCAGTGCACAGGGAATCTCTGgtacattgcaaatctgtttagatttcatcttcttctatcgctcctatgttgcttatcgtatagttgcctgataagtaattcctatgaaaatgtag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatctcgagagagacatgttttgtg---tgatgtgaccgtgatcgtgtctc---ttttgcag----------------------------------------------
|| ||  ||||||| || || || ||||| ||||||||||| ||||| ||||| ||||||||||| || || || |||||||    | |||   |  ||||   ||   |  |||      |  | | | ||   ||||||                                                
GTTCCAAATTTGTATTGTATTGGAGATGCCAATGGCAAACTCATGCTGGCTCATGCTGCCAGTGCACAAGGAATCTCAGgtagatac-agaataatttgttcactgttttattgtacttcagcgcatatttcgggttttgctttgaactagtgtagttctttgataactaatttcttgtctgaatatag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GRMZM2G152958_T02 (Zea mays), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatctcgagagagacatgttttgtgtgatgt----gaccgtgatcgt--gtctcttttgcag-------------------------
|||||  |||| || ||||| || ||||| |||||||| || |||||||| || ||||||||||| || || ||||||||||  || |||||   | | || | |||| | |    || | || |  |  || |  ||  | |                         
GTACCCAATTTATATTGCATTGGAGATGCCAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgta--cttgagagttcctttttct-tgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GLYMA07G37050.1 (Glycine max), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaa-tctcgagagagacatgttttgtgtga--tgtgaccgtgatcgtg-tctcttttgcag-----------------
|| |||||||| ||||| || || ||||||||||||||  ||||||||||||| ||||||||||| || || ||||||||||| |    |   |   |  |||      |  | |     |    |   | || ||||  |                 
GTGCCTCATTTATACTGTATTGGTGATGCAAATGGCAAGATGATGCTTGCTCATGCTGCCAGTGCACAAGGAATTTCAGgtaagtggtaactcatgtaattttcccaaaaattttagtttttgctgcaatatcatttgatgaaaaaattgtctaacag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GLYMA09G04270.1 (Glycine max), 5'ss of exon 5
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatct-cgagagagacatgttttgtg-tgatgtgaccgtgatcgtgtctcttttgcag------------------------
|| ||||||||||| ||||| || ||| ||||||||||  ||||||||||||| ||||||||||| || || |||||||||||    | ||  |   |  |||  |  | || |    || ||    |  | ||  |                          
GTTCCTCATTTGTATTGCATTGGTGATACAAATGGCAAGATGATGCTTGCTCATGCTGCCAGTGCACAAGGAATTTCAGgtaagaagcaagtaatgtaattttgctactaatatttgagtcatttgcttccattcacttaatgaaaatattgttgttggaaag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GLYMA15G15310.1 (Glycine max), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatctcgagagagacatgttttgt--gtgatgtgaccgtgatcgtgtctcttttgcag---------------------
|| ||||||||||| || || || ||||||||||||||  ||||||||||||| |||||||| || || || |||||||||||     ||  |      |||||    | || |    || ||    |  | ||| |                       
GTTCCTCATTTGTATTGTATTGGTGATGCAAATGGCAAGATGATGCTTGCTCATGCTGCCAGCGCACAAGGAATTTCAGgtaagaagcaggtaatgtaattttgctactaatttttgagtcatttgcttccatttacttaatgaaaagattgttggatag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GLYMA17G03560.1 (Glycine max), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaa-tctcgagagagacatgttttgtgtgatgtgaccgtgatcgtg-tctcttttgcag-----------------
|| |||||||| || || || || ||||||||||||||  ||||||||||||| ||||||||||| || || ||||||||||| |    |  ||   |  ||||     || |          |   | || ||||  |                 
GTGCCTCATTTATATTGTATTGGTGATGCAAATGGCAAGATGATGCTTGCTCATGCTGCCAGTGCACAAGGAATTTCAGgtaagtggtaactgatgtaacttttccaaaatttagtttatgcagcaatatcatttgatgaaaaaattgtctaacag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaa----tctcgagagagacatgttttgtgtg-atgtgaccgtgatcgtgtctcttttgcag-------------------------------------------------------
|| || || |||||||||||||| ||||| ||||| ||||||||||||||||| || || |||||||| || ||||| |||||    | |    |         |     || || |  |  |  |  |  || || | ||                                                        
GTTCCCCACTTGTACTGCATCGGTGATGCCAATGGTAAACTGATGCTTGCTCATGCAGCTAGTGCTCAAGGAATTTCTGgtaaatggttttatcaatatttcactccaaatgcatctttcttttgtttttccttttctacactgaatacgttagattgacctttattaaactctatgcatctacttgtgttggctag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: AT3G16950.2 (Arabidopsis thaliana), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaat---ctcgagagagacatgttttgtgtgatgtgaccgtgat----cgtgtctcttttgcag-------------------------------------
|| ||  | ||||||||||| || ||||| ||||| ||| |||||||||| || || |||||||| || || ||||| |||||    ||    ||    | | |       |||  |   |  |    | | | |||| |  ||                                     
GTTCCGAACTTGTACTGCATTGGTGATGCCAATGGTAAATTGATGCTTGCACATGCAGCCAGTGCCCAAGGAATTTCTGgtaaatggcttatcagtaggaggctactaacaatgcaataatattttcccttttttcttcttgagccttgtattaaactctgagctcttactctgtggctag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatc------tcgagagagacatgttttgtgtgatgtgaccgtgatcgtgtctcttttgcag-----------------------------------
|| ||||| ||||| ||||| || ||||||||||| ||| ||||||||||||| ||||| ||||| || || || || ||||||       |     |  ||    | | |   |  ||    |  || |     |||   |                                    
GTTCCTCACTTGTATTGCATTGGTGATGCAAATGGAAAAATGATGCTTGCTCATGCTGCAAGTGCCCAAGGAATCTCTGgtaattaccttgtttgttgccactctctctctactacatggtttttgtcattcagttttaatatctacttgaaacctgacttttcttttgtcgacatag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgt-aatctcgagagagacatgttttgtgtgatgtgaccgtgatcgtgtctcttttgcag--------------------------------
|| ||||| ||||| ||||| || ||||||||||| ||| ||||||||||||| || || ||||| || || ||||||||| | |    |      ||| |||||  || | |  |  | |   ||   |||   |                                  
GTTCCTCACTTGTATTGCATAGGTGATGCAAATGGTAAAATGATGCTTGCTCATGCAGCAAGTGCACAAGGAATTTCAGgttagtggtaactacctcatattttgc-tgttttacctttaaaaatgctacttaaaccatcttcattttttgcttggctcttgtgatgcag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: PP1S35_94V6.1 (Physcomitrella patens), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatctcgagagagacatgttttgtgtgatgtgaccg-tgatcgtgtctcttttgcag------------------------------------------------------------------------------------------
||||| || ||||| |||||||||||||||||||||||  ||||||||||||| || || || ||||| |||||||| |||       | |    | ||||    | |||   | || | |   ||  |   |  ||                                                                                           
GTACCACACTTGTATTGCATCGGCGATGCAAATGGCAAGATGATGCTTGCTCATGCAGCAAGCGCTCAAGGCATTTCGGgtgggtc--atacgaccctgttcctcgggattgaagcgctaacattggattcataacattatattcatatttattttattgattatgggcaatctcactcgtcccagtttctcacataaaatcgatatgcgttggttttttatgaacag

upper sequence: EFJ06739 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: PP1S112_186V6.1 (Physcomitrella patens), 5'ss of exon 10
GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatctcgagagagacatgttttgtgtgatgtgaccgtgatcgtgtctcttttgcag------------------------------------------------------------------------
||||| ||||||||||||||||| ||||||||||||||  ||||||||||||| || || || || || |||||||| ||| |     |        ||||    |   ||   |  | |   |   || ||  ||                                                                         
GTACCGCATTTGTACTGCATCGGTGATGCAAATGGCAAGATGATGCTTGCTCATGCAGCAAGCGCCCAAGGCATTTCTGgtgaatc--attctactgtgttcctcgaattgaagcatttacattagatccttgccattgttggttattgagtgtcgtactcggcactgttccttatgtcgataaatttgcgttaccttttcatgaacag

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), 34 (downstream exon)
Score: 26

GTACCTCATTTGTACTGCATCGGCGATGCAAATGGCAAACTGATGCTTGCTCACGCTGCCAGTGCTCAGGGCATTTCAGgtaatctcga ... tcttttgcagTTATTGAGAGACTTGCTGGAAACGACAATGTCCTAAACCATTTAAGCATACCAGCCGCTTGCTTCACACATCCAGAGATAAGCATGACTGGGATGACTGA




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