Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttataatctctttcttttgtgatcactgctaaacttttcgattcacagGATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCCAGCAGGGAAAGTCGGATTGACAATCACAGGGCTCTAGCCGCCTATAAGC

Basic information

species Selaginella moellendorffii
transcript EFJ33096
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|169066196|gb|FE475176.1|FE475176
EST:     GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCG                         GATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC
genomic: GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCGgtaagtttta ... cgattcacagGATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC
EST: gi|169115110|gb|FE516683.1|FE516683
EST:     GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCG                         GATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC
genomic: GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCGgtaagtttta ... cgattcacagGATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC
EST: gi|169115111|gb|FE516684.1|FE516684
EST:     GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCG                         GATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC
genomic: GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCGgtaagtttta ... cgattcacagGATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC
EST: gi|169022774|gb|FE429762.1|FE429762
EST:     GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCG                         GATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC
genomic: GGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCGgtaagtttta ... cgattcacagGATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCC

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: 29 (upstream exon), 34 (downstream exon)
Score: 5

ACTACTCCAGGAACCACAAAGACCAACATTCCTGGTGTGTTCGCTGCTGGGGACGTCCAAGACAAGAAGTATAGGCAAGCGGTGACTGCTGCCGGTACCGgtaagtttta ... cgattcacagGATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCCAGCAGGGAAAGTCGGATTGACAATCACAGGGCTCTAGCCGCCTATAAGC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagttttataatctctttcttttgtgatcactgctaaacttttcgattcacagGATGCATGGCTGCACTGGACGCGGAACACTTCTTACAGGAGTATGGAGTCCAGCAGGGAAAGTCGGATTGACAATCACAGGGCTCTAGCCGCCTATAAGC
                                 tgctaaa  putative branch site (score: 5)
                                        cttttc  CT-rich tract
     ttttataatctcttt  TA-rich tract