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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCCGGAGGCCCTTGTCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAAgtgagctgattcgtatctgatcttttactatgcaaatctttcaattgtagcttacatattgttgctcctaatgaagctattctagttgatttaatgtgtttgatggttttaaatgtacag

Basic information

species Physcomitrella patens
transcript PP1S5_195V6.1
intron # 10
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|162232153|gb|FC407729.1|FC407729
EST:     TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAA                         ATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTCTTGATACA
genomic: TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAAgtgagctgat ... aaatgtacagATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTCTTGATACA
EST: gi|67571511|gb|BJ944335.1|BJ944335
EST:     TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAA                         ATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTCTTGATACA
genomic: TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAAgtgagctgat ... aaatgtacagATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTCTTGATACA
EST: gi|162232167|gb|FC407730.1|FC407730
EST:     TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCANAA                         ATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTTCT-GATAC
genomic: TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAAgtgagctgat ... aaatgtacagATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTT-CTTGATAC
EST: gi|162159330|gb|FC335144.1|FC335144
EST:     TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAA                         ATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTCTTGATACA
genomic: TCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAAgtgagctgat ... aaatgtacagATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTCTTGATACA

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: 23 (upstream exon), 34 (downstream exon)
Score: 7

GTTCCGGAGGCCCTTGTCCCTGAGACGTGTGCTAGGGTTATGTCGCTGACAGACGGCACTGCAAAAgtgagctgat ... aaatgtacagATGTCAAAATCAGCTCCTTCAGATCTCTCACGGATTAACCTTCTTGATACACCTGAT




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