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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGGACATGAAGAAAATCTCGGCGGTTTCCATTTTCTTCGAGACTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACGgtactaactgcaaaccattagttgtggtcctgtataatgctcttatgcatgtacatccttttgatgtatatccttggataatatttttgatgtgattttgaggattgtttctagctatgatcactctccttttcctaaacatgcgttgaagttgtgagtctaatttaacagatcaatttggaaatttgcag

Basic information

species Physcomitrella patens
transcript PP1S79_54V6.1
intron # 7
splice site 5'
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|162182305|gb|FC357176.1|FC357176
EST:     CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACG                         ATGGAGAANAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCC
genomic: CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACGgtactaactg ... aaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCC
EST: gi|100385980|gb|BY951174.1|BY951174
EST:     CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACG                         ATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCC
genomic: CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACGgtactaactg ... aaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCC
EST: gi|208379665|gb|DC903720.1|DC903720
EST:     CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACG                         ATGGAGAAAAGCGCAGTTCTT-ACAGGC-AAAATNGATAG
genomic: CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACGgtactaactg ... aaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAG
EST: gi|162155361|gb|FC331767.1|FC331767
EST:     CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACG                         ATGGAGAANAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCC
genomic: CTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACGgtactaactg ... aaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCC
EST: gi|100392460|gb|BY953374.1|BY953374
EST:     TATGCCATACCGAT-GGNACGAGTCTACAGGTTACATAGACTACGATACG                         ATGGAGAAAAGCGCAGTTCTTTTACAGGC-AAAATTGAT
genomic: TATGCCATACCGATTGG-ACGAGTCTACAGGTTACATAGACTACGATACGgtactaactg ... aaatttgcagATGGAGAAAAGCGCAGTTCTTT-ACAGGCCAAAATTGAT

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: 26 (upstream exon), 30 (downstream exon)
Score: 2

ACGGACATGAAGAAAATCTCGGCGGTTTCCATTTTCTTCGAGACTATGCCATACCGATTGGACGAGTCTACAGGTTACATAGACTACGATACGgtactaactg ... aaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCCAGTGCCTATGCTCGCCATTACGACTATGCTCGTATGCGCAAG




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