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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgtttgacaactttcctttagatggatgactcggcctaatgcacaaataacag

Basic information

species Selaginella moellendorffii
transcript EFJ14567
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ14567 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: LOC_Os02g18820.2 (Oryza sativa), 5'ss of exon 14
AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgtt--tgacaactttcctttagatggatgactcggcctaa---tgcacaaataacag-----------------------
 ||  || | || ||  ||||||| || ||||||||||||||||| || || || ||||||||||||     ||| || || |||||||| || || |||||   |  ||| ||   |  |     |  || |  | ||    |||     |||                          
GGACATGGAGCTGGTAAGAGTTCTTCCTAGTGCTGAAGATGAAGTAAACGTTGCATGCTTTCATCCTTCCCCTGGAGGTGGTCTTGTTTATGGGACCAAGgtaaatagcaaattagatcaatcaacagtacacaacatatatttgctttgctaattcatgcactcacacatttgcatcag

upper sequence: EFJ14567 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: LOC_Os09g12550.1 (Oryza sativa), 5'ss of exon 13
AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgt--ttgacaactttcctttagatggatgactcggcctaatgcacaaataacag--------------------
|||  || | || ||  ||||| |||| ||||||||||||||||| ||||| || || |||||||||     ||| | ||| |||||||| || || |||||   |||||| ||   |  | ||  | || | |    |||      ||| | |                    
AGACATGGAGCTTGTAAGAGTTATCCCTAGTGCTGAAGATGAAGTCAATGTCGCATGTTTTCATCCTTCCCCTGGTGCAGGTCTTGTTTATGGGACTAAGgtgagtgacaagttaggtcaatatcaaaga-tggaatgaatattggtatatctgatgcttatgttgaatcacag

upper sequence: EFJ14567 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: GRMZM2G007229_T01 (Zea mays), 5'ss of exon 13
AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgt---ttgacaactttcctttagatggat-gactcggcctaatgcacaaataacag------------------
|||| || | || ||| |||| || || || |||||||||||||||||||| || ||||||||||||  |   || || || |||||||| ||||| |||||   | || |||| | |  || |   |  |    |||  | |||  |                          
AGATATGGAGCTTGTGAGAGTGCTTCCTAGCGCTGAAGATGAAGTTAATGTTGCATGCTTTCATCCTTCACCAGGAGGTGGCCTTGTTTATGGCACTAAGgtcggtagaaaactattcaataaacaaagaggtatggcggattgctaaggctttcattctggtgaactatatag

upper sequence: EFJ14567 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: Vv05s0077g00140.t01 (Vitis vinifera), 5'ss of exon 12
AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgtttgacaactttcctttagatggatgactcggcctaatgc--acaaataacag----------------------------------
 ||| || |||| ||| ||||||| || ||||| || ||||| ||||||||||| ||||||||||||   ||||| || || ||||| || || || |||||     ||      || | ||||||    |  | |  |     ||  |                                       
TGATATGGAACTTGTGAGAGTTCTTCCTAGTGCAGAGGATGAGGTTAATGTAGCTTGCTTTCATCCTTCTGTTGGAGGTGGCCTTGTCTATGGAACGAAGgtgaacaaataggatttaaaatggatattgcttcttggtttctgcagctgtttacctgaccttataatattcacttgctcaaatacag

upper sequence: EFJ14567 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 5'ss of exon 12
AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgtttga--caactttcctttagatggatg---------actcggcctaatgcacaa-ataacag----------------------------------------------------------------
|||| || |||| ||  |||| || || |||||||||||||| || |||||||| ||||||||||||  |  ||| ||||| ||||| || || || ||||| |    |   |  | ||| ||   ||          | | |  ||  |   ||| | || ||                                                                
AGATATGGAACTTGTTAGAGTGCTTCCCAGTGCTGAAGATGAGGTCAATGTAGCTTGCTTTCATCCTTTACCTGGAGGAGGTCTTGTGTATGGAACCAAGgtgtacatctgataccgtttggaaatatttttatttttatttgttctcttcttcaataaaatagaataatattaattttttcagcttatatccttacttctgtgtaattcttttgctgaaaattgcag

upper sequence: EFJ14567 (Selaginella moellendorffii), 5'ss of exon 12
lower sequence: PP1S150_95V6.1 (Physcomitrella patens), 5'ss of exon 12
AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgtttgacaactttcctttagatggatgactcggcctaatgca-caaataacag-----------------------------------------------
|||| || | || ||| | ||  | || |||||||||||||| || ||||| |||||||||||||| | |||||| || || ||||  || || ||||||||  |      ||||| |   |      |  |   |||   | || ||   ||                                               
AGATATGGAGCTTGTGAGGGTATTACCTAGTGCTGAAGATGAGGTGAATGTGGCGTGCTTTCATCCCCAAGTTGGTGGTGGTCTTGCATATGGAACAAAGgtgagttgtgattcctctgtttttcaagccagtaataagttatcacattgtaggagtctccttttgttagtagatttattgtttaagctggaatattttg

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: 27 (upstream exon), 23 (downstream exon)
Score: 5

AGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTGTTTACGGCACAAAGgtttgacaac ... caaataacagGAAGGCAAGCTCCGAATCATCCGTAGGGACTGGATCACAAATTCTTTTGGTTCGTCCAGACAACATGGGCTGGAGGATCAGCTTCTGGAG




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