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

gtaactctttctggtacttttcacttgtagagctccttttcctgtttgccacttgacttaatcgtcgcgaactccttgcagATCGAGTGTTTATCTTTGACATGTATAATCGAGATATATATCCACTG

Basic information

species Selaginella moellendorffii
transcript EFJ15307
intron # 7
splice site 3'
intron type U2

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|169111714|gb|FE514019.1|FE514019
EST:     TCTTGATGCTCACCAAGGCAATGGTCATGAAAGGGATTTTGCAGATGATG                         ATCGAGTGTTTATCTTTGACATGTATAATCGAGATATATATCCACTG
genomic: TCTTGATGCTCACCAAGGCAATGGTCATGAAAGGGATTTTGCAGATGATGgtaactcttt ... ctccttgcagATCGAGTGTTTATCTTTGACATGTATAATCGAGATATATATCCACTG
EST: gi|169111715|gb|FE514020.1|FE514020
EST:     TCTTGATGCTCACCAAGGCAATGGTCATGAAAGGGATTTTGCAGATGATG                         ATCGAGTGTTTATCTTTGACATGTATAATCGAGATATATA
genomic: TCTTGATGCTCACCAAGGCAATGGTCATGAAAGGGATTTTGCAGATGATGgtaactcttt ... ctccttgcagATCGAGTGTTTATCTTTGACATGTATAATCGAGATATATA
EST: gi|169028911|gb|FE438090.1|FE438090
EST:     TCTTGATGCTCACCAAGGCAATGGTCATGAAAGGGATTTTGCAGATGATGGTAACTCTTTCTG             
genomic: TCTTGATGCTCACCAAGGCAATGGTCATGAAAGGGATTTTGC--A-GAT-G--A-------TGgtaactcttt ..

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: 28 (upstream exon), 35 (downstream exon)
Score: 8

GGCGATGATTGTTGATCTTGATGCTCACCAAGGCAATGGTCATGAAAGGGATTTTGCAGATGATGgtaactcttt ... ctccttgcagATCGAGTGTTTATCTTTGACATGTATAATCGAGATATATATCCACTG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagagctccttttcctgtttgccacttgacttaatcgtcgcgaactccttgcagATCGAGTGTTTATCTTTGACATGTATAATCGAGATATATATCCACTG
                             acttaat  putative branch site (score: 8)
                                             ctccttgc  putative PPT
                             acttaat  TA-rich tract