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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctgagttcaatgtccgcaacactgcatcgctgttacaattccaggcggaatatggccaaatggtgaacacgttcccctcttccgcacttcctctgaacccacctctcgatttgtatgacagGTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCACTTTTCTGATCGACACGCAAAATGAAAATCAGATAATCAAGGTTCAGGT

Basic information

species Physcomitrella patens
transcript PP1S77_270V6.2
intron # 7
splice site 3'
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|162166561|gb|FC343258.1|FC343258
EST:     TGTAAAGCTGAGCTACTTACACACAACATACAAAAGTGGAATACTTGGGG                         GTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCA
genomic: TGTAAAGCTGAGCTACTTACACACAACATACAAAAGTGGAATACTTGGGGgtaagttctg ... tgtatgacagGTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCA
EST: gi|162258655|gb|FC434350.1|FC434350
EST:     TGTAAAGCTGAGCTACTTACACACAACATACAAAAGTGGAATACTTGGGG                         GTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCA
genomic: TGTAAAGCTGAGCTACTTACACACAACATACAAAAGTGGAATACTTGGGGgtaagttctg ... tgtatgacagGTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCA
EST: gi|162217362|gb|FC392830.1|FC392830
EST:     CAAAAGTGGAATACTTGGGG                         GTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCA
genomic: CAAAAGTGGAATACTTGGGGgtaagttctg ... tgtatgacagGTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCA

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: 10 (upstream exon), 26 (downstream exon)
Score: 1

CAAGAGTTTCGGAAGTCAGTGTAAAGCTGAGCTACTTACACACAACATACAAAAGTGGAATACTTGGGGgtaagttctg ... tgtatgacagGTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCACTTTTCTGATCGACACGCAAAATGAAAATCAGATAATCAAGGTTCAGGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acacgttcccctcttccgcacttcctctgaacccacctctcgatttgtatgacagGTCAAGGAGACAAGTTCTTGTGGGTTGACGGATCCTTCGAGAACACCTTCACTTTTCTGATCGACACGCAAAATGAAAATCAGATAATCAAGGTTCAGGT
                                          atttgtat  TA-rich tract