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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtgtcagcctcttttccttgtttcttcttcttctccgtactattttcttctgcaatgagacacctttccttctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAACATCCAGCGCCCGAGCTAGATGAGATTTTAGAAGAATCACGAAAGCTTGC

Basic information

species Selaginella moellendorffii
transcript EFJ32812
intron # 13
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|169074465|gb|FE480825.1|FE480825
EST:     ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAG                         GTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
genomic: ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
EST: gi|169115886|gb|FE517665.1|FE517665
EST:     ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAG                         GTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
genomic: ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
EST: gi|169115887|gb|FE517666.1|FE517666
EST:     ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAG                         GTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
genomic: ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
EST: gi|169100564|gb|FE501387.1|FE501387
EST:     ACTCTACCCGTCCTACATGGGTACTTTGATGGCAAAAGCTAACCGTACAG                         GTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
genomic: ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
EST: gi|169055622|gb|FE465279.1|FE465279
EST:     ACATGGGTACC-TGNATGGCAAAAGCTAACCGTACAG                         GTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
genomic: ACATGGGTACCTTG-ATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
EST: gi|169097096|gb|FE498435.1|FE498435
EST:     ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAG                         GTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
genomic: ACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
EST: gi|169040400|gb|FE448426.1|FE448426
EST:     ACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAG                         GTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC
genomic: ACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAAC

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), 28 (downstream exon)
Score: 6

CAAATTGGCGCATTGGTCGCGGATACTTTCGAGAAGGAATTCGGGGACAGACTCTACCCGTCCTACATGGGTACCTTGATGGCAAAAGCTAACCGTACAGgtatggtgtc ... ctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAACATCCAGCGCCCGAGCTAGATGAGATTTTAGAAGAATCACGAAAGCTTGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcttctccgtactattttcttctgcaatgagacacctttccttctctttgcagGTGAGGCTACTGGGAAAGGCTACTACAACTATCATGGAACACGCCAAGAACATCCAGCGCCCGAGCTAGATGAGATTTTAGAAGAATCACGAAAGCTTGC
                                  cacctttccttctctt  CT-rich tract
           tactatttt  TA-rich tract