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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtctttcagtttttttcttagcttgagtcttcgtttccatcgttttccatatactgatcgatggttttgtttgtctccag

Basic information

species Selaginella moellendorffii
transcript EFJ18699
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA13G26280.1 (Glycine max), 5'ss of exon 10
GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtac--ttggtctttcagtttttttcttagcttgagtcttcgtttccatcgttttccatat-actgatcgatggttttgtttg---tctccag-------
 || || ||||| |||||  |  | ||||| ||||||||||| || || |||||||||||| ||||| | ||||| ||  || |||| ||||||||||||||    ||   ||     ||||  |  ||| || |   ||          |||||  | || | | || ||  |||||||||    | |  |        
TAAGGCTGATGTTTTCCATTTGCTGTCTGGCATGTGGAAAACACCTGCTGAGAGGTGTTTTTTGTGGCTTGGTGGTTTTCGGTCATCTGAACTTCTCAAGgtgaggttatgctgatccttttcattctagtttcatggtttagaaaacgggttttgtagattagtaatggacagttttgtttaaattttttaaaaagaag

upper sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA02G30090.1 (Glycine max), 5'ss of exon 3
GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtctttcagtttttttcttagcttgagtcttcgtttccatcgttttccatatactgatcgatg-gttttgtttgtctccag---------------
 ||| |||| || |||||||| || | |||  ||||||| || || |||||  | || ||||||||||| ||||||||||||||||| |||||  ||||||||  |     |  |  || |  | |  |     |  |  |||  |||       || |||| ||  ||  ||  |||| ||    |                
CAAAACCGACGTATTCCACCTTGTTTTTGGCGTGTGGAAGACCCCAGCCGAACGTTGCTTTATGTGGATTGGTGGCTTCAGGCCATCTGAACTCATCAAGgtatata--tatgtaaattctaacgtgtcccacttaattttttatatcaacaaatat-tactaattaatatgtcatgttagtaaaaaatttaatcttataatc

upper sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA03G28400.2 (Glycine max), 5'ss of exon 4
GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtctttcagtttttttcttagcttgagtcttcgtttccatcgttttccatatactgatcgatggtt-----ttgtttgtctccag--------
 ||||| |||   | |||  |  | || || |||||||| ||||| || ||||||||||| |||||||| || |||||  ||||||| |||||  |||||||     || | ||   | | |  || |     || ||   |    |     |   |  ||| ||   |||||     ||| |||  | |          
AAAAGCTGATTCTTGCCAGATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGCCATCCGAACTCTTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc

upper sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA03G28320.1 (Glycine max), 5'ss of exon 10
GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtctttcagtttttttcttagcttgagtcttcgtttccatcgttttccatatactgatcgatggtt-----ttgtttgtctccag--------
 ||||| ||||| |||||| |  | || || |||||||| ||||| || ||||||||||| |||||||| || |||||  || |||| ||||| ||||||||     || | ||   | | |  || |     || ||   |    |     |   |  ||| ||   |||||     ||| |||  | |          
AAAAGCTGATGTTTTCCACATTCTGTCAGGAATGTGGAAGACTCCAGCTGAGAGGTGTTTCATGTGGATTGGAGGCTTTCGGTCATCCGAACTCCTCAAGgtgagaagtttctcttatctatgttttgtaaatgttttttctggtttgaaaattgcttcactaatatctggttgaacattgattgcattccatgcttccc

upper sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA10G12000.1 (Glycine max), 5'ss of exon 5
GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtctttcagtttttttcttagcttgagtcttcgt---ttccatcgttttccatata----ctgatcgatg-gttttgtttgtctccag------
 |||  ||| || |||||||| || | ||| |||||||| || || || ||  | || || |||||||| ||||||||||||||||| |||||  |||||||| |   |   | | | |||||     ||  | |          |  | | || |  ||||      ||| || |   || |||   | |  |       
CAAAATCGACGTATTCCACCTTGTTTTTGGCATGTGGAAGACCCCAGCTGAACGTTGCTTCATGTGGATTGGTGGCTTCAGGCCATCTGAACTCATCAAGgta-tgaataagtgactatttttaaactctccaattcagaaaaaataaaccattattaatatggagtttgaccggtatattatgtgaattttaatgtgtcc

upper sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA15G37220.1 (Glycine max), 5'ss of exon 6
GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtctttcagtttttttcttagcttgagtcttcgtttccatc----gttttccata-tactgatcga-tggttttgtttg----tctccag-----
 || || ||||| |||||  |  | ||||| ||||||||||| || || |||||||||||| ||||| | ||||| ||  || |||| ||||| ||||||||    ||| || | | |  |||     || |  || | ||||  |      |||||| | |  | | || |     ||||||||     | |  |      
TAAGGCTGATGTTTTCCATTTGTTGTCTGGTATGTGGAAAACACCTGCTGAGAGGTGTTTTTTGTGGCTTGGTGGTTTTCGGTCATCTGAACTCCTCAAGgt--caggttttgctgatccttttcattctggtttcatggtttagaaaatgggttttctagagcagtaattgggccattttgtttaaatttttttaagaaaa

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: 29 (upstream exon), 29 (downstream exon)
Score: 18

GAAAGCCGATGTCTTCCACCTCGTCTCTGGGATGTGGAAAACTCCCGCCGAGAGGTGTTTTATGTGGATGGGTGGCTTCAGGCCATCAGAACTTCTCAAGgtacttggtc ... ttgtctccagATATTGATTCCACAGCTCGAGCCTCTCACCGAGCAGCAGCTTTTAGGAATTTGTAACTTACAGCAGTCGTCACAGCAGGCCGAGGACGCTCTCTCGCAAG




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