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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtttcaatcccctactgatgtaaaactctgctatgagtatgaatttaactgaatttcccttagagcagtcatgactcgatactgatcattgcctcgtcatcgaaatgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGTGTATCCCTACTATCAGTCCCTCATTGACAAG

Basic information

species Physcomitrella patens
transcript PP1S94_154V6.1
intron # 8
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|18338826|gb|BJ170851.1|BJ170851
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208387406|gb|DC949191.1|DC949191
EST:     CTATTGAGTGAGACCGACCACGGGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208374909|gb|DC956182.1|DC956182
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208365450|gb|DC950917.1|DC950917
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAGAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208354165|gb|DC957399.1|DC957399
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208353406|gb|DC946312.1|DC946312
EST:     CTATTGAGTGAGGCCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208369206|gb|DC955835.1|DC955835
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|67724374|gb|BJ974633.1|BJ974633
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208354175|gb|DC957409.1|DC957409
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208365296|gb|DC950767.1|DC950767
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
EST: gi|208354338|gb|DC953786.1|DC953786
EST:     CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAA                         CAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT
genomic: CTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGT

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: 26 (upstream exon), 21 (downstream exon)
Score: 5

CGCTGCATCAAGCGGGAGCATACAAGCACCTATTGAGTGAGACCGACCACGAGAATCTTCAGTGGCTTGAAAAATTCAAgtagtttcaa ... tgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGTGTATCCCTACTATCAGTCCCTCATTGACAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagagcagtcatgactcgatactgatcattgcctcgtcatcgaaatgtattgcagCAAATTTGATTTGTACTCCAAAAGTAAGGTGCGCGTCGATACTGATGAAGTGTATCCCTACTATCAGTCCCTCATTGACAAG
                   tactgat  putative branch site (score: 5)
                                          aaatgtatt  TA-rich tract