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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGGGAGAGTGGTAGAGCAGCGCAGCGGAACCGAACAGGTGGCGGCGAGCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggttttagaaactcctgtgcctctttcaagcttttgacagtttttcagtttgagttgctgtgaagactcaatttctgtgactctatatgggggcgacaggcagcagctaacaaccgcattggtattatcgtgcag

Basic information

species Physcomitrella patens
transcript PP1S93_152V6.1
intron # 2
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|162212440|gb|FC388688.1|FC388688
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|162267754|gb|FC443744.1|FC443744
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCANAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|162267753|gb|FC443743.1|FC443743
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|67693921|gb|BJ954154.1|BJ954154
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|162212441|gb|FC388689.1|FC388689
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|162261543|gb|FC437560.1|FC437560
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|208373724|gb|DC952701.1|DC952701
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|208353236|gb|DC926161.1|DC926161
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|208360198|gb|DC950199.1|DC950199
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|208369687|gb|DC936393.1|DC936393
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAACAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
EST: gi|162261542|gb|FC437559.1|FC437559
EST:     GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACG                         TTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA
genomic: GCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGA

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: 35 (upstream exon), 32 (downstream exon)
Score: 18

GAGGGGAGAGTGGTAGAGCAGCGCAGCGGAACCGAACAGGTGGCGGCGAGCGCTACCGCGTGCTTCTTCTCGACCATGAACGTCACACTGAAACATACGgtcggtttta ... tatcgtgcagTTGCAAAAGCTCTCACCAAAGCGGTGCCTAACATCACAGCTGAGCAGGCGAGGAAGTGCTTCTTTGAATCACGGCTTATCGGCAAGTCCGTGGTTATGGT




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