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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttctccgtccattgcagccaaagccaaggtcatctaactttttttccagGTTACTTCCGTTTCTTACAGTTCCTGTGGAAGATATATCCAGGCATCTTGCACAGCAAACAGCGCAATCGTTTGGGACACACGGTTAATGCCAATGGAGC

Basic information

species Selaginella moellendorffii
transcript EFJ17125
intron # 10
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|169086678|gb|FE494315.1|FE494315
EST:     TTCGGAGCTGTGGTGCCATCTCCAGACTACCTCTTGGCCCCCGTTGTGAG                         GTTACTTCCGTTTCTTACAGTTCCTGTGGAAGATATATCCAGGCATCTTGC
genomic: TTCGGAGCTGTGGTGCCATCTCCAGACTACCTCTTGGCCCCCGTTGTGAGgtatttctcc ... ttttttccagGTTACTTCCGTTTCTTACAGTTCCTGTGGAAGATATATCCAGGCATCTTGC
EST: gi|169028598|gb|FE440741.1|FE440741
EST:     TTCGGAGCTGTGGTGCCATCTCCAGACTACCTCTTGGCCCC-GTTGTGAG                         GTTACTTCCGTTTCT
genomic: TTCGGAGCTGTGGTGCCATCTCCAGACTACCTCTTGGCCCCCGTTGTGAGgtatttctcc ... ttttttccagGTTACTTCCGTTTCT

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: 25 (upstream exon), 29 (downstream exon)
Score: 6

GCTCAGGCGATGGAACAATCGGCTTATTTGATATTCGGAGCTGTGGTGCCATCTCCAGACTACCTCTTGGCCCCCGTTGTGAGgtatttctcc ... ttttttccagGTTACTTCCGTTTCTTACAGTTCCTGTGGAAGATATATCCAGGCATCTTGCACAGCAAACAGCGCAATCGTTTGGGACACACGGTTAATGCCAATGGAGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatttctccgtccattgcagccaaagccaaggtcatctaactttttttccagGTTACTTCCGTTTCTTACAGTTCCTGTGGAAGATATATCCAGGCATCTTGCACAGCAAACAGCGCAATCGTTTGGGACACACGGTTAATGCCAATGGAGC
                                     atctaac  putative branch site (score: 6)
                                      tctaactttttttcc  CT-rich tract
                                     atctaacttttttt  TA-rich tract