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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctctcggcttttttatctcgtttacaatgccgacagttctgcagGTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTACAATGCCTTGGAC

Basic information

species Selaginella moellendorffii
transcript EFJ09619
intron # 4
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|169113523|gb|FE515058.1|FE515058
EST:     ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATG                         GTCATGTTCATGTGGCAGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA
genomic: ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATGgtaagtttct ... agttctgcagGTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA
EST: gi|169094268|gb|FE495546.1|FE495546
EST:     ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATG                         GTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA
genomic: ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATGgtaagtttct ... agttctgcagGTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA
EST: gi|169052849|gb|FE461214.1|FE461214
EST:     ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATG                         GTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA
genomic: ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATGgtaagtttct ... agttctgcagGTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA
EST: gi|169043155|gb|FE454069.1|FE454069
EST:     ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATG                         GTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA
genomic: ACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATGgtaagtttct ... agttctgcagGTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTA

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: 30 (upstream exon), 26 (downstream exon)
Score: 10

ATCAAAGCTATCATAAACTCGTTGCTTCCTGCCTGTATTGAGGCTGATGGACCAGTTCCTTTCAGAGCTCAGGCGATGATTGCAAATCCTCCCGCGTATGgtaagtttct ... agttctgcagGTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTACAATGCCTTGGAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagtttctctcggcttttttatctcgtttacaatgccgacagttctgcagGTCATGTTCATGTGGCTGAGTACTTGAGAGTCCCACTTCACATTTTCTTTACAATGCCTTGGAC
                        ttttttatct  TA-rich tract