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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgtaagctctttgtgtttttttttatatcttacaagttacacattttataaatgtgtag

Basic information

species Selaginella moellendorffii
transcript EFJ15121
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ15121 (Selaginella moellendorffii), 5'ss of exon 21
lower sequence: LOC_Os02g08010.1 (Oryza sativa), 5'ss of exon 9
GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgt-----aagct----ctttgtgtttttttttat---atcttacaagttacacat--tttataaatgtgtag--------
||| | ||||| ||  | ||||| ||   ||| || ||||| || || ||||||||||| || |||||||||||||| || ||||| |||||||| || ||     ||| |    |||  |  | ||    |    || | |||| |  |  |   |||||  || ||||         
GCAGACATTGGTCTTGCTATGGGTATCCAAGGAACAGAAGTAGCTAAAGAAAGCTCAGATATAATTATTCTGGATGACAATTTTGCTTCAGTTGTAAAGgttagggaagttggagcttaataatcttacacaattaatttaacaaatgccttaacatttatccatatgtaacgttctag

upper sequence: EFJ15121 (Selaginella moellendorffii), 5'ss of exon 21
lower sequence: GLYMA07G00630.2 (Glycine max), 5'ss of exon 25
GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgtaagc--tctttgtgtttttttttatatcttacaagttacacattttataaatgtgtag----------------------------------------
||  ||||||| || || ||||| ||   ||| |||||||| ||||| ||||||||||| ||||| || || || ||||||||||||||||| || || ||| |   ||| | |  |   || |    |||  |  | | |   | |     |   |                                          
GCTGATATTGGTCTTTCTATGGGCATCCAAGGAACTGAAGTTGCAAAAGAAAGCTCAGATATTATAATCCTAGACGATAACTTTGCATCAGTGGTAAAGgtaggtgttctatttaatacattctcaggcttggatatgatattgtcttccgtttcctgtatcttctcctagtaaattgttgggtaatcaacgctcccac

upper sequence: EFJ15121 (Selaginella moellendorffii), 5'ss of exon 21
lower sequence: GLYMA15G00340.1 (Glycine max), 5'ss of exon 27
GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgtaagctctttgtgtttttttttatatcttacaa-gttacacattttataaatgtgtag------------------------------------------
||| ||||||| || || ||||| ||   ||| || ||||| ||||| ||||| ||||| ||||| ||  |||||||||||||||||||||| || || |||||||  |||| ||||||||  | |||  ||  | ||||   |||  | |||   |                                           
GCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTTGCAAAAGAAAGTTCAGATATTATAATCTTGGATGATAACTTTGCATCAGTAGTAAAGgtaagcttgttgtcttttttttggtgtctgtcattggtacatgattt-cacatgctcaacttaagaacttatatacatttctttggcaatgatttgcctag

upper sequence: EFJ15121 (Selaginella moellendorffii), 5'ss of exon 21
lower sequence: GLYMA13G44990.1 (Glycine max), 5'ss of exon 27
GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgtaagctctttgtgttttttttta----tatcttaca-agttacacattttataaatgtgtag-------------------------------------
||| ||||||| || || ||||| ||   ||| || ||||| ||||| ||||| ||||| ||||| ||  |||||||||||||||||||||| || || |||||||  || | | ||   |||    | | ||| |  |||     ||||     | |||                                       
GCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTTGCAAAAGAAAGTTCAGATATTATAATCTTGGATGATAACTTTGCATCAGTAGTAAAGgtaagcttgttatttattcacttaagcatgtattatatggttgtctttttttggtgtctgtcattggtacaatttcacatgctcaacttagaagttataa

upper sequence: EFJ15121 (Selaginella moellendorffii), 5'ss of exon 21
lower sequence: GLYMA08G23760.1 (Glycine max), 5'ss of exon 28
GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgtaagc--tctttgtgtttttttttatatcttacaagttacacattttataaatgtgtag----------------------------------------
||| ||||||| || || ||||| ||    || |||||||| ||||| ||||||||||| ||||| || || || || |||||||||||||| || || ||| |   ||| | |  | | || |    |||     | | |   | |     |   |                                          
GCAGATATTGGTCTTTCTATGGGCATCTCCGGAACTGAAGTTGCAAAAGAAAGCTCAGATATTATAATCCTAGACGACAACTTTGCATCAGTAGTAAAGgtaggtgttctatttaatatattctcagccttgggtatgatattgtcttccgtttcctgtatcttctcctagtaaaaagttattacttcattttccattg

upper sequence: EFJ15121 (Selaginella moellendorffii), 5'ss of exon 21
lower sequence: Vv09s0018g02130.t01 (Vitis vinifera), 5'ss of exon 27
GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgtaagctctttgtgtttttttttatatcttacaagt-tacacattttataaatgtgtag-----------------------------------------
||| |||| || || || ||||| |||  ||| |||||||| ||||| |||||||||||||| |||||  |||||||||||||||| |||||||| || || ||             ||| | |   | |   || |    | ||| ||  | ||                                            
GCAGATATAGGTCTCTCTATGGGCATTCAAGGAACTGAAGTTGCAAAAGAAAGCTCAGACATCATTATCTTGGATGATAACTTTGCCTCAGTTGTAAAGgttagtgtaagcaaaccatttatgtgagtaaattgtcttgggaatttgtagttatgattctaccttgttatatttaaaacaaaaatactgtcaatccttt

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCACATATTGGGCTATCCATGGGAATTGTAGGCACTGAAGTCGCAAAGGAAAGCTCAGACATTATTATTCTGGATGATAACTTTGCATCAGTTGTCAAAgtaagctctttgtgtttttttttatatcttacaagttacacattttataaatgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA