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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtggtacttgggtttgtggtgacaagattgtaatggaagctggggtcttttctttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCATTGCTCTTCACGCGAGGAATGCCGAGTATAACCCCAAG

Basic information

species Selaginella moellendorffii
transcript EFJ04980
intron # 1
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|169065931|gb|FE475379.1|FE475379
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169034024|gb|FE444214.1|FE444214
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169065615|gb|FE476181.1|FE476181
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169081802|gb|FE488260.1|FE488260
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169078386|gb|FE488261.1|FE488261
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169027385|gb|FE432682.1|FE432682
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169034025|gb|FE444215.1|FE444215
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169027384|gb|FE432681.1|FE432681
EST:     GGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169044778|gb|FE451922.1|FE451922
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169108645|gb|FE509768.1|FE509768
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169108646|gb|FE509769.1|FE509769
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
EST: gi|169065616|gb|FE476182.1|FE476182
EST:     GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACA                         GAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT
genomic: GAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCAT

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: 33 (upstream exon), 35 (downstream exon)
Score: 27

CGCTGGTAATCTCTTGTTCTTGACCCATGGCGCAAATTCTAGAGGGCACTGAGCCGGTGGATCTTGCCAAGCATCCGTCTGGGATCATTCCGACCTTACAgtgagtggta ... ttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCATTGCTCTTCACGCGAGGAATGCCGAGTATAACCCCAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggtttgtggtgacaagattgtaatggaagctggggtcttttctttcttttcagGAACATTGTCTCGACCGTGAACATGGATTGTAAACTAGATCTGAAAACCATTGCTCTTCACGCGAGGAATGCCGAGTATAACCCCAAG
                                     tcttttctttcttttc  CT-rich tract
                  attgtaat  TA-rich tract