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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCGATCTCCCTCTTCACCGCCCCCACACTTTAAGCGTGCAGGGTTTCGCCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatccttcatttttccggcttacgagcgtgccctcgaaatattgtttgtgcgcgtgcaggtgtggtgttttatgttgtggtggagttatattga...

Basic information

species Physcomitrella patens
transcript PP1S7_342V6.1
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|208373415|gb|DC941040.1|DC941040
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|162239821|gb|FC415660.1|FC415660
EST:     TCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: TCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67578633|gb|BJ950800.1|BJ950800
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|162212530|gb|FC388506.1|FC388506
EST:     CAGGAAAATCATNTGACGTGCAAGGCTTCCAACTAAG                         TNATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67697393|gb|BJ957626.1|BJ957626
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|208367159|gb|DC935959.1|DC935959
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67697230|gb|BJ957463.1|BJ957463
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|162245391|gb|FC421293.1|FC421293
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|208383618|gb|DC907009.1|DC907009
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67569515|gb|BJ942339.1|BJ942339
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67508262|gb|BJ941131.1|BJ941131
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|18341925|gb|BJ173960.1|BJ173960
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|162245392|gb|FC421294.1|FC421294
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|162239822|gb|FC415661.1|FC415661
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|18351941|gb|BJ183993.1|BJ183993
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67570987|gb|BJ943811.1|BJ943811
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67694292|gb|BJ954525.1|BJ954525
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|18361673|gb|BJ193739.1|BJ193739
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67573843|gb|BJ946667.1|BJ946667
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67574004|gb|BJ946828.1|BJ946828
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|67568932|gb|BJ941756.1|BJ941756
EST:     CAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|208384859|gb|DC907472.1|DC907472
EST:     CCGTGATCTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
EST: gi|162270943|gb|FC447362.1|FC447362
EST:     CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAG                         TTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT
genomic: CCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGAT

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: 25 (upstream exon), 34 (downstream exon)
Score: 30

GGTCGATCTCCCTCTTCACCGCCCCCACACTTTAAGCGTGCAGGGTTTCGCCGTGAACTCCTTCAGGAAAATCATTTGACGTGCAAGGCTTCCAACTAAGgtgcgtcatc ... actccattagTTATCTTCAAATATGGCTGAGAAGCGCGTCAAGCTGAAGAGCTCTGATGATGAGATGTTCGAGGTCGATGAGGCCGTGGCGTTCGAGTCACAAGCTGTGA




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