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'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGACGGCCTCATCAAACTGATGGCTTGCGATGACACTGGTCCCATCAACCTCGGAAATCCAGgtaaagaaacagaagcaccatctcttcttttctggctgatcgtctcgttttcag

Basic information

species Selaginella moellendorffii
transcript EFJ35029
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ35029 (Selaginella moellendorffii), 5'ss of exon 10
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 5'ss of exon 9
------------------------------------GTTGACGGCCTCATCAAACTGATGGCTTGCGATGACACTGGTCCCATCAACCTCGGAAATCCAGgtaaagaaacagaagcaccatctcttcttttctggctgatcgtctcgttttcag------------------------------------
                                    ||||| || || ||    || ||||   | ||||||||||||||||||||| |||| || ||||||||||      |    ||  |  |          |    |  |   | |   |                                    
ACACAGACTCGCAGTTTCTGTTATGTATCTGACATGGTTGATGGACTTATGCGCCTCATGGAAGGAGATGACACTGGTCCCATCAACATCGGTAACCCAGgtaaagtccgtaatattcctccattagacaaaacacaacccaaccaatctcttgaacttatgctttgtgtccgactctttggtttctcag
















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|169078730|gb|FE489606.1|FE489606
EST:     CAAACTGATGGCTTGCGATGACACTGGTCCCATCAACCTCGGAAATCCAG                         GCGAGTTCACAATTCTAGAGCTGGCAGAAGCCGTGCGAGAG
genomic: CAAACTGATGGCTTGCGATGACACTGGTCCCATCAACCTCGGAAATCCAGgtaaagaaac ... tcgttttcagGCGAGTTCACCATTCTAGAGCTGGCAGAAGCCGTGCGAGAG
EST: gi|169050504|gb|FE458883.1|FE458883
EST:     CAAATTGATGGCTTGCGATGACACTGGTCCCATCAACCTCGGAAATCCAG                         GCGAGTTCACAATTCTAGAGCTGGCAGAAGCCGTGCGAGAG
genomic: CAAACTGATGGCTTGCGATGACACTGGTCCCATCAACCTCGGAAATCCAGgtaaagaaac ... tcgttttcagGCGAGTTCACCATTCTAGAGCTGGCAGAAGCCGTGCGAGAG

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), 33 (downstream exon)
Score: 16

GTTGACGGCCTCATCAAACTGATGGCTTGCGATGACACTGGTCCCATCAACCTCGGAAATCCAGgtaaagaaac ... tcgttttcagGCGAGTTCACCATTCTAGAGCTGGCAGAAGCCGTGCGAGAG




<











<


<