Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatcatcactgaagtttttgttgtcgaagtgtttgaccctcaagtttccctacgagctagtagcttcagtggacgtgtcaatcatgtaaaattcgtacatattacacagacaaaaaagaattcatgttggatttctttctgcattgcag

Basic information

species Physcomitrella patens
transcript PP1S22_76V6.1
intron # 3
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|162262297|gb|FC437624.1|FC437624
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|67694098|gb|BJ954331.1|BJ954331
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162270731|gb|FC446344.1|FC446344
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162224836|gb|FC400836.1|FC400836
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162227758|gb|FC402686.1|FC402686
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18350710|gb|BJ182761.1|BJ182761
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162262298|gb|FC437625.1|FC437625
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|19781574|gb|BQ039741.1|BQ039741
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162267059|gb|FC443290.1|FC443290
EST:     GTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: GTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37830037|gb|BJ588049.1|BJ588049
EST:     CCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37841076|gb|BJ599084.1|BJ599084
EST:     ATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: ATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162273803|gb|FC449734.1|FC449734
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162267060|gb|FC443291.1|FC443291
EST:     GTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: GTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18365111|gb|BJ197185.1|BJ197185
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18363914|gb|BJ195986.1|BJ195986
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18361968|gb|BJ194035.1|BJ194035
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37842317|gb|BJ600325.1|BJ600325
EST:     GGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: GGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37834576|gb|BJ592588.1|BJ592588
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGNT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37845725|gb|BJ603733.1|BJ603733
EST:     CGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162224837|gb|FC400837.1|FC400837
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18364653|gb|BJ196726.1|BJ196726
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|67692927|gb|BJ953160.1|BJ953160
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162205889|gb|FC381335.1|FC381335
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162270730|gb|FC446343.1|FC446343
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162272796|gb|FC447978.1|FC447978
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37834233|gb|BJ592245.1|BJ592245
EST:     CAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|67570800|gb|BJ943624.1|BJ943624
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162205890|gb|FC381336.1|FC381336
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37845346|gb|BJ603354.1|BJ603354
EST:     CAAGNCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18365599|gb|BJ197676.1|BJ197676
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18345004|gb|BJ177045.1|BJ177045
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18352797|gb|BJ184852.1|BJ184852
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|67571863|gb|BJ944687.1|BJ944687
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|37824207|gb|BJ582273.1|BJ582273
EST:     TTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: TTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|67569660|gb|BJ942484.1|BJ942484
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|18346488|gb|BJ178531.1|BJ178531
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162273804|gb|FC449735.1|FC449735
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
EST: gi|162227744|gb|FC402685.1|FC402685
EST:     CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAG                         AACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT
genomic: CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCT

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), 34 (downstream exon)
Score: 19

CCTGCAAGGCCAGAGGTTCCGATTTGCGAGTGCACTTCAAGgtactgatca ... tgcattgcagAACACTAGGGAAGCAGCGCAAGCTATCAAACATATGGAGTTGGCCAAGGCTAAGCGGTACCTTGAAGATGTGTGTGCTCACAAGCAGGCTATCCCCTTCC




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