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'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactttgtacctgcggcttggcttgagttttgactgccggtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG

Basic information

species Selaginella moellendorffii
transcript EFJ33580
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ33580 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: AT5G56500.2 (Arabidopsis thaliana), 3'ss of exon 12
---------------------gtaagactttgtacctgcggctt---ggcttgagttt-tgactgccggtgtgtg-cagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG
                      |   | ||||   ||   | |        | |||   || ||      |  || ||||| ||| |    || |||  ||| || ||||| |||||||| |||||   ||  ||  |||||||||| ||||||||||||||||||||||| 
gtaatcaatctccttaaaagaatgcaagtttgagtcttttgatatagaaactaagtcaatggcttttttcggttgacagGTTCTTTCTAGTGACAACCCTAAACATGGTTACAATGCTGCAACTGGCAAATACGAAGATCTCATGGCTGCAGGAATCATTGATCCAACCAAA
















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|169077167|gb|FE486093.1|FE486093
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169098700|gb|FE500238.1|FE500238
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169024290|gb|FE432551.1|FE432551
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169030365|gb|FE437828.1|FE437828
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169081608|gb|FE491262.1|FE491262
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169021473|gb|FE428560.1|FE428560
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169028066|gb|FE435424.1|FE435424
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169098667|gb|FE500231.1|FE500231
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169038911|gb|FE449628.1|FE449628
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169024240|gb|FE435218.1|FE435218
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
EST: gi|169111606|gb|FE513963.1|FE513963
EST:     AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAA                         GTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA
genomic: AGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCA

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: 21 (upstream exon), 34 (downstream exon)
Score: 6

ATTGGAGCCGAAATTGTGAGGAAAGCCTTGAGCTATCCCGTGAAGCTCATCGCAAAAAATGCTGGTGTTAACGGCAGCGTTATCGTTGAGAAAgtaagacttt ... gtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagactttgtacctgcggcttggcttgagttttgactgccggtgtgtgcagGTCCTTGCCGACGATAACTTTAACCACGGTTATAATGCTGCGACTGGTGCATTTGAGAATCTCATGGCGGCAGGAATCATTGATCCAACCAAG
                                 ttttgac  putative branch site (score: 6)