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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgtttttggattattccgattgtgagttaactgtgtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTTTGTCCAGTCAGGAATAGACACAACCGAG

Basic information

species Selaginella moellendorffii
transcript EFJ28980
intron # 21
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|169034690|gb|FE443411.1|FE443411
EST:     GGATGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAA                         GCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
genomic: GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAAgtaagctgtt ... gtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
EST: gi|169027104|gb|FE435638.1|FE435638
EST:     GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAA                         GCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
genomic: GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAAgtaagctgtt ... gtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
EST: gi|169027105|gb|FE435639.1|FE435639
EST:     GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAA                         GCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
genomic: GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAAgtaagctgtt ... gtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
EST: gi|169102476|gb|FE508026.1|FE508026
EST:     GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAA                         GCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
genomic: GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAAgtaagctgtt ... gtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
EST: gi|169034676|gb|FE443410.1|FE443410
EST:     GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAA                         GCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT
genomic: GGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAAgtaagctgtt ... gtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTT

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: 34 (upstream exon), 35 (downstream exon)
Score: 18

GCTGCCTCGCTGATCCATAATGGCCTTTTTCTGGCGGGTTGTGGAAACGGGTCTTTCATGATGTTTGATGTTCGGAAGCAAGACAAgtaagctgtt ... gtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTTTGTCCAGTCAGGAATAGACACAACCGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagctgtttttggattattccgattgtgagttaactgtgtcttgacagGCAAGTGTTCTCCCAGAAGGCGCATTTCCAGAGAGTCGCGGGCATAGATTTTGTCCAGTCAGGAATAGACACAACCGAG
                                   agttaac  putative branch site (score: 18)
                         attatt  TA-rich tract