Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTTCACAAGAGAATGCCTCCGGAGGCTGTGGATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtttctcccaaatcgtccactttgaagagcactgacactggtggtatacacttcacag

Basic information

species Selaginella moellendorffii
transcript EFJ04915
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ04915 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GLYMA03G01850.1 (Glycine max), 5'ss of exon 11
GTGTTTCACAAGAGAATGCCTCCGGAGGCTGTGGATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtt--tctcccaaatcgtccactttga-----agagcac-tgacactggtggtatacacttcacag-------------------------------
|| ||||||||||||||||| || || |||||||||||||| || || || || ||||| || || ||||| || || | | | |||||||  | |   |||  ||   || | |     |||  || | | ||   |   || ||    ||||                               
GTTTTTCACAAGAGAATGCCACCTGAAGCTGTGGATCTTGTATCAAGGCTGCTTCAATATTCACCAAATCTACGTTGCACTGCTgtaagttgatttttgaaaatgttacctattatatctagattacataatacatatttgat-caaactacagtttttatatgcacatacttaccaaagaagaa

upper sequence: EFJ04915 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GLYMA10G01280.2 (Glycine max), 5'ss of exon 11
GTGTTTCACAAGAGAATGCCTCCGGAGGCTGTGGATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtttct--------cccaaatcgtcca--ctttgaagagcac--tgacactggtggtatacacttcacag--------------------------
 | ||||||||| |  | ||||| |||||||||||||| ||||| || ||||| |||||||| || ||||| || || |   | || ||| | |            | |  |  |  |||| ||   |||  | |  | ||| |  |||| |  || |                          
ATCTTTCACAAGCGCTTACCTCCTGAGGCTGTGGATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatatagttgtattatgatttatggaagcttttaaagacactttaaatccggttgagtacattaaactgtcatgttcatgattattttatggctg

upper sequence: EFJ04915 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: GLYMA02G01220.3 (Glycine max), 5'ss of exon 10
GTGTTTCACAAGAGAATGCCTCCGGAGGCTGTGGATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagt------ttctcccaaatcgtcca----ctttgaagagcactgacac----tggtggtatacacttcacag------------------------
 | ||||||||| |  | ||||| |||||||||||||| ||||| || ||||| |||||||| || ||||| || || |   | || |||      || |   ||            |||| ||||    ||| |     | || | ||||| |  || |                        
ATATTTCACAAGCGTTTACCTCCTGAGGCTGTGGATCTCGTCTCAAGGCTACTGCAATACTCTCCAAATCTTCGATGCACAGCTgtgagtatatagttgtattaagatacatggaagctttaaagacacttgaaatcttgttgttgaatacattaaactgtcatgttcatgatcattttatgtc

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|169024806|gb|FE435485.1|FE435485
EST:     ATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCA                         CTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGG
genomic: ATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtttct ... cacttcacagCTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGG
EST: gi|169066575|gb|FE474135.1|FE474135
EST:     ATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCA                         CTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACT
genomic: ATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtttct ... cacttcacagCTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACT
EST: gi|169033900|gb|FE441932.1|FE441932
EST:     ATCTTGTCTCGAGACTGCTCCAATACTCGCCTAATCTGCGCTGTAGTTCA                         CTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACT
genomic: ATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtttct ... cacttcacagCTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACT
EST: gi|169100546|gb|FE502721.1|FE502721
EST:     ATCTTGTCTCGAGACTGCTCCAATACTCGCCTAATCTGCGCTGTAGTTCA                         CTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACT
genomic: ATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtttct ... cacttcacagCTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACT

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), 35 (downstream exon)
Score: 52

GTGTTTCACAAGAGAATGCCTCCGGAGGCTGTGGATCTTGTCTCGAGACTACTCCAATACTCGCCTAATCTGCGCTGTAGTTCAgtaagtttct ... cacttcacagCTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACTCGACTTCCAAATGGTCGTCCGCTACCACCTCTGTACAATTTCAAGCAAT




<











<


<