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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAGTATCGTGTTCACATTAGAGGAAGGACCAGGTGTTCTGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcatttaatttctaaagttttacaatggttgcattactgtgtacgtagatcaaggtgctaaacaattgtatattttgcattgaattcacag

Basic information

species Physcomitrella patens
transcript PP1S84_76V6.1
intron # 8
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|37851942|gb|BJ609950.1|BJ609950
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|208360945|gb|DC946634.1|DC946634
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|18339266|gb|BJ171293.1|BJ171293
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|162258880|gb|FC434887.1|FC434887
EST:     TGTTCAAGGCACTCGCAGTTTTTGCCCTACGGGAAATCATTCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|208372438|gb|DC952282.1|DC952282
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|37847781|gb|BJ605789.1|BJ605789
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|208375291|gb|DC945018.1|DC945018
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|18334585|gb|BJ166602.1|BJ166602
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|208365784|gb|DC951047.1|DC951047
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|18334591|gb|BJ166608.1|BJ166608
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|18334132|gb|BJ166148.1|BJ166148
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|208372580|gb|DC952357.1|DC952357
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|67700858|gb|BJ961091.1|BJ961091
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|18340558|gb|BJ172586.1|BJ172586
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|15320383|gb|BI488392.1|BI488392
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|162182472|gb|FC357447.1|FC357447
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|162196646|gb|FC374936.1|FC374936
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|208367467|gb|DC955675.1|DC955675
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
EST: gi|37842276|gb|BJ600284.1|BJ600284
EST:     TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAG                         ATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC
genomic: TGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGC

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: 30 (upstream exon), 31 (downstream exon)
Score: 2

ACCAGTATCGTGTTCACATTAGAGGAAGGACCAGGTGTTCTGTTCAAGGCACTCGCAGTCTTTGCCCTACGGGAAATCAATCTTACCAAGgtatcattta ... gaattcacagATTGAAAGTCGTCCTCAAAGAAAGAGGCCGTTACGCGTGGTGGATGATAGCAACAATGGAAGTGCCAA




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