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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGGTGTGAATGCGTACGAGATGTCCATGGAACCTGAGGACCTCATGGCTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatctttctaaatttgagttcgcgtttgagttgtgttaagaaggaaattcctgatcatttattcccaacgtcgaaaacaatgaagaagtgtttttggtttttctaactttttccttataactgtagttcaaggcttgtgatacgtctttacaaaagtaatcgtctgaaatggtggctgtgcag

Basic information

species Physcomitrella patens
transcript PP1S7_406V6.1
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|208350585|gb|DC922114.1|DC922114
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|162154869|gb|FC331911.1|FC331911
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTNTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|162250069|gb|FC427378.1|FC427378
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|208376893|gb|DC918792.1|DC918792
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|162250070|gb|FC427379.1|FC427379
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|37850322|gb|BJ608330.1|BJ608330
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|208398626|gb|DC920521.1|DC920521
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|162195749|gb|FC371140.1|FC371140
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|162195748|gb|FC371139.1|FC371139
EST:     TGAGCTCTATACCAATGGTCCTG-TGAGGGTGGCCTNTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: TGAGCTCTATACCAATGGTCCTGTTGA-GGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|19789964|gb|BQ041614.1|BQ041614
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTC
EST: gi|37843562|gb|BJ601570.1|BJ601570
EST:     CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGG                         GACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTT
genomic: CTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGA-Ggtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTT

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: 31 (upstream exon), 33 (downstream exon)
Score: 11

TCTTGGTGTGAATGCGTACGAGATGTCCATGGAACCTGAGGACCTCATGGCTGAGCTCTATACCAATGGTCCTGTTGAGGTGGCCTTTGAGGTTTACGAGgtagccatct ... ggctgtgcagGACTTCGCTCATTACAAAACTGGAGTTTACAAACATCTTTTCGGTGGCTTCATGGGAGGGCACGCTGTGAAGCTTATTGGATGGGGAACCACCGACGATG




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