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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttcacagttttgtttctccgtaactagagcgggaaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGTCTCGAGAAATATGTCTTATGCGGGGATCATATCTATCACAAG

Basic information

species Selaginella moellendorffii
transcript EFJ12029
intron # 16
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|169018414|gb|FE427223.1|FE427223
EST:     CATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAG                         GTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
genomic: CATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAGgtttgttcac ... aaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
EST: gi|169018415|gb|FE427224.1|FE427224
EST:     CATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAG                         GTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
genomic: CATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAGgtttgttcac ... aaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
EST: gi|169027982|gb|FE435379.1|FE435379
EST:     CATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAG                         GTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
genomic: CATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAGgtttgttcac ... aaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
EST: gi|169058950|gb|FE468758.1|FE468758
EST:     CATTCGACGATGAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAG                         GTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
genomic: CATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAGgtttgttcac ... aaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
EST: gi|169050732|gb|FE457902.1|FE457902
EST:     TTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAG                         GTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT
genomic: TTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAGgtttgttcac ... aaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGT

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), 35 (downstream exon)
Score: 15

AGAGCTGCTGGTGGCTGTAAGTTCTGGAGAAGCTATAGTATCTGGAGCTTCATTCGACGATAAGGATCGGTGGAAGATTTTTGCGTACATGTACAGCAAGgtttgttcac ... aaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGTCTCGAGAAATATGTCTTATGCGGGGATCATATCTATCACAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgttcacagttttgtttctccgtaactagagcgggaaaatatcagGTGGCCAAAAGCTGGTGGTTTGCTCCGGGACACGGTGATTGGGATACCTGTCTCGAGAAATATGTCTTATGCGGGGATCATATCTATCACAAG
                             ccgtaac  putative branch site (score: 15)
                                                    aaaatatca  TA-rich tract