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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTCTTCTGTTTGCGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcctctgccctgattctctccacactttgcactttgtagcatcctgtcctgctgatatgcacaaattctcatggaaattgacttcactttgatt...

Basic information

species Physcomitrella patens
transcript PP1S34_445V6.1
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|208347591|gb|DC925534.1|DC925534
EST:     CTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|162181735|gb|FC358765.1|FC358765
EST:     CTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|67575228|gb|BJ948052.1|BJ948052
EST:     CCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|18370179|gb|BJ201781.1|BJ201781
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|67709455|gb|BJ965271.1|BJ965271
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|208346895|gb|DC905439.1|DC905439
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|67698687|gb|BJ958920.1|BJ958920
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|100363460|gb|BY966400.1|BY966400
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|37826795|gb|BJ584807.1|BJ584807
EST:     CTTCATCATGG                         GCGCNTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|18340479|gb|BJ172507.1|BJ172507
EST:     CTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|67723886|gb|BJ974145.1|BJ974145
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|208379859|gb|DC911744.1|DC911744
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|162268392|gb|FC444161.1|FC444161
EST:     CGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|208346559|gb|DC916825.1|DC916825
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGNTATCCTTCATCATGG                         GCGCNTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTNTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|18347722|gb|BJ179769.1|BJ179769
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|162262360|gb|FC437687.1|FC437687
EST:     CCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|162211656|gb|FC387944.1|FC387944
EST:     CGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|162181734|gb|FC358764.1|FC358764
EST:     CTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|67709347|gb|BJ965163.1|BJ965163
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|67709809|gb|BJ965625.1|BJ965625
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|37851003|gb|BJ609011.1|BJ609011
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|208382335|gb|DC919323.1|DC919323
EST:     ATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: ATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|208376710|gb|DC902919.1|DC902919
EST:     CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
EST: gi|162201996|gb|FC377202.1|FC377202
EST:     CCCTGCGCTATCCTTCATCATGG                         GCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC
genomic: CCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGC

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), 35 (downstream exon)
Score: 50

GCTCTCTTCTGTTTGCGCCATCGCCATCCCGTCTTTGCGTCCCCCTGCGCTATCCTTCATCATGGgtactctcct ... ttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGCTGCGGTTTTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG




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