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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtgttcggatcaccttttctaatctacttgtaatttgtaccttgcgattattgttaaggtgtatatttgtggattggatctacttcgctagca...

Basic information

species Physcomitrella patens
transcript PP1S17_286V6.1
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|162184832|gb|FC361134.1|FC361134
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100370198|gb|BY985291.1|BY985291
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGGATCTCAAAGGC-GATCACAGT
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAG-CAGATCACAAT
EST: gi|100370539|gb|BY985459.1|BY985459
EST:     GAATTTGCGAGATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTANCA-TATGACGGATCAAGAGTATCTCAAAGCAGATCACAAT
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTA-CAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAAT
EST: gi|162157033|gb|FC333395.1|FC333395
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100386555|gb|BY951351.1|BY951351
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCANAGCAGATCACAAAT
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAA-T
EST: gi|100433927|gb|BY978890.1|BY978890
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100410253|gb|BY974485.1|BY974485
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|208378728|gb|DC914702.1|DC914702
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100443910|gb|BY982138.1|BY982138
EST:     GATTTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100407865|gb|BY955817.1|BY955817
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCANAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|162243725|gb|FC421846.1|FC421846
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100404600|gb|BY973659.1|BY973659
EST:     AATTTGCGAAATCACCCTGCATTTGTGGAC-GACACTAGGCTCGGCATGG                         CTGAGACGTACAATATGACGGATCAGGAGTATCTCAGAGCAGATCACAATC
genomic: AATTTGCGAAATCACCCTGCATTTGTG-ACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100447095|gb|CJ971394.1|CJ971394
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100447779|gb|CJ972078.1|CJ972078
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100448765|gb|CJ973064.1|CJ973064
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCANATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|162189231|gb|FC366740.1|FC366740
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100390401|gb|BY952809.1|BY952809
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCANGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100426769|gb|BY977353.1|BY977353
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100401328|gb|BY990947.1|BY990947
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCANAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100356349|gb|BY946320.1|BY946320
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCA
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCA
EST: gi|100360286|gb|BY966100.1|BY966100
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGNACGGATCA-GAGTATCTCAAAGCAGATCACAAT
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATG-ACGGATCAAGAGTATCTCAAAGCAGATCACAAT
EST: gi|100446094|gb|CJ970393.1|CJ970393
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100447201|gb|CJ971500.1|CJ971500
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100387473|gb|BY988344.1|BY988344
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|208384897|gb|DC907510.1|DC907510
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|208393420|gb|DC942504.1|DC942504
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
EST: gi|100367904|gb|BY984806.1|BY984806
EST:     GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG                         CTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC
genomic: GAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATC

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: 31 (upstream exon), 35 (downstream exon)
Score: 13

GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTGgtatggggtg ... ggttttgcagCTGAGACGTACAATATGACGGATCAAGAGTATCTCAAAGCAGATCACAATCAACATAGGGATGCAGGGTCAACTGCCTCCACGGCCGTTTTGGTGGGCGA




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