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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttttctctgagccaaaaagctgtcgaaaatttctcctaaagtttttaactccgggatttcttgtccagCTTGACAAGTATGTACAATCGCACATTCAGATTAACGAATACCGTGACCGTGTTGTTCTT

Basic information

species Selaginella moellendorffii
transcript EFJ15172
intron # 6
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|169116352|gb|FE517715.1|FE517715
EST:     GACCTGTCTTTGCTATCGGAGTAGGACATAGTGGCTACGATAGAGCACCG                         CTTGACAAGTATGTACAATCGCACATTCAGATTAACGAATACCGTGACCGT
genomic: GACCTGTCTTTGCTATCGGAGTAGGACATAGTGGCTACGATAGAGCACCGgtgagttttc ... tcttgtccagCTTGACAAGTATGTACAATCGCACATTCAGATTAACGAATACCGTGACCGT
EST: gi|169116351|gb|FE517714.1|FE517714
EST:     ACGATAGAGCACCG                         CTTGACAAGTATGTACAATCGCACATTCAGATTAACGAATACCGTGACCGT
genomic: ACGATAGAGCACCGgtgagttttc ... tcttgtccagCTTGACAAGTATGTACAATCGCACATTCAGATTAACGAATACCGTGACCGT

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), 32 (downstream exon)
Score: 18

GGTAGACCTGTCTTTGCTATCGGAGTAGGACATAGTGGCTACGATAGAGCACCGgtgagttttc ... tcttgtccagCTTGACAAGTATGTACAATCGCACATTCAGATTAACGAATACCGTGACCGTGTTGTTCTT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaagctgtcgaaaatttctcctaaagtttttaactccgggatttcttgtccagCTTGACAAGTATGTACAATCGCACATTCAGATTAACGAATACCGTGACCGTGTTGTTCTT
                             ttttaac  putative branch site (score: 18)
                                           tttcttgtcc  putative PPT
                       taaagtttttaact  TA-rich tract