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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTAGTGAGTTGCGAGTGGTGGAACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAGgtatgccctttttactgttcgcttctggtgaggttttatgtctctttgtgttcaatcttttaatactcacgtatcctgttactttttcttgagcagtgat...

Basic information

species Physcomitrella patens
transcript PP1S47_245V6.2
intron # 4
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|37846490|gb|BJ604498.1|BJ604498
EST:     AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAG                         GCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGAGTTCCAGAT
genomic: AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAGgtatgccctt ... cttgcttcagGCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGAGTTCCAGAT
EST: gi|208396939|gb|DC915959.1|DC915959
EST:     AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAG                         GCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGAGTTCCAGAT
genomic: AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAGgtatgccctt ... cttgcttcagGCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGAGTTCCAGAT
EST: gi|18366115|gb|BJ198193.1|BJ198193
EST:     AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAG                         GCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGGAGTTCCAGA
genomic: AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAGgtatgccctt ... cttgcttcagGCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGG-AGTTCCAGA
EST: gi|162259549|gb|FC435476.1|FC435476
EST:     AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAG                         GCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGAGTTCCAGAT
genomic: AACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAGgtatgccctt ... cttgcttcagGCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGAGTTCCAGAT

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: 29 (upstream exon), 33 (downstream exon)
Score: 8

ACTTAGTGAGTTGCGAGTGGTGGAACTTCTAGATGGGCTCTGTTCAAAAATGAAGGGTTATGTTCCAAATAAGgtatgccctt ... cttgcttcagGCTGGCCCTGGGCGTACATTTTGGTTAAAAGTGGAAGGGGGAGTTCCAGATGCTCCAGAGATGGCACTTA




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