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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTTCGGTCTCTGCTTTGTCCTCCATTTCCCCCTTTGCAGCGATTGCAACTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggctgattctctgcctgcataaatttcaaatggttaggctaaagactggctttagagtcgatttgtctcatttgggttgtgtgagggagttcat...

Basic information

species Physcomitrella patens
transcript PP1S84_50V6.1
intron # 1
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|100356992|gb|BY983639.1|BY983639
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|18361063|gb|BJ193127.1|BJ193127
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|208376147|gb|DC910999.1|DC910999
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|18342648|gb|BJ174683.1|BJ174683
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|162258161|gb|FC433943.1|FC433943
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|100420202|gb|BY975968.1|BY975968
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|18371824|gb|BJ203426.1|BJ203426
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTANGTTTTCGGCTTGTACGGCTTGGAAANAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|208368756|gb|DC940051.1|DC940051
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|100450649|gb|CJ974369.1|CJ974369
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|208391587|gb|DC933836.1|DC933836
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|18326916|gb|BJ158916.1|BJ158916
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
EST: gi|100409806|gb|BY956113.1|BY956113
EST:     CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAG                         GTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT
genomic: CTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCT

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: 14 (upstream exon), 35 (downstream exon)
Score: 11

AACTTCGGTCTCTGCTTTGTCCTCCATTTCCCCCTTTGCAGCGATTGCAACTGCACCCACTTCCTCGTCTAGTCCGACCGCTGCCACCCCGATCACCGAGgtcagtggct ... tgctacgcagGTGCAAAACTGTTGTAGGTTTTCGGCTTGTACGGCTTGGAGAGAACAGTCTTCGTTGGGGTTGTGTCGTTTCTTCTTGCATCTGTTCAGAGCCGTGATAT




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