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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcttactttgaatttttttgtgcgttctttctgattcgctcgctgcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACGAGATATGCGACCAGAAACCTTCTCGAATTTTGTCTCTGCAACACTCTAC

Basic information

species Selaginella moellendorffii
transcript EFJ32896
intron # 2
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|169049745|gb|FE457785.1|FE457785
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|169101740|gb|FE501245.1|FE501245
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|169045729|gb|FE451702.1|FE451702
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|169043818|gb|FE453809.1|FE453809
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|169049744|gb|FE457784.1|FE457784
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|169069806|gb|FE480305.1|FE480305
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|70669820|gb|DN838397.1|DN838397
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|169045728|gb|FE451701.1|FE451701
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
EST: gi|169043817|gb|FE453808.1|FE453808
EST:     GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCT                         CTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG
genomic: GACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACG

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: 35 (upstream exon), 34 (downstream exon)
Score: 24

TGAATTTCCAGACGATAGCTACGGATTTTCAGCGCATTTTCAAGATCCATGACAAGCTCTATGTCGGATTAGCAGGGCTTGCTTCCGACGTCCAGACTCTgtaagtttct ... gcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACGAGATATGCGACCAGAAACCTTCTCGAATTTTGTCTCTGCAACACTCTAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttactttgaatttttttgtgcgttctttctgattcgctcgctgcctttgtagCTACCAACGATTGAAGTATCGACACAACCTCTTCCAGTTGCAGGAGGAACGAGATATGCGACCAGAAACCTTCTCGAATTTTGTCTCTGCAACACTCTAC
                                           ctgccttt  CT-rich tract
     actttgaattttttt  TA-rich tract