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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTGTCGGGACGGCCATATTTGGGTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgattcttcctacactcgaagtcagtgttacttttgacaaagaagttgtatatggtgcatttggaagtttacatcaatgaatggtcagagtatttgtaaaatgaaacaacgggaggaaattgaacgtcagtaatcgttgtcctacttataataattttgccaaggacttttgttttgaatttttacgcag

Basic information

species Physcomitrella patens
transcript PP1S37_83V6.1
intron # 5
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|162196840|gb|FC373895.1|FC373895
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCA-TCCATGGCGAACACTTCAGGAATGACGCT
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCT
EST: gi|162222109|gb|FC397337.1|FC397337
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|15590622|gb|BI675238.1|BI675238
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|162153154|gb|FC329560.1|FC329560
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|162196839|gb|FC373894.1|FC373894
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|162189058|gb|FC365176.1|FC365176
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|18337884|gb|BJ169908.1|BJ169908
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|162222108|gb|FC397336.1|FC397336
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|15261812|gb|BI437122.1|BI437122
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|208361844|gb|DC950116.1|DC950116
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|162208762|gb|FC384898.1|FC384898
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|162271019|gb|FC447424.1|FC447424
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAATTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|19785589|gb|BQ040342.1|BQ040342
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|37838754|gb|BJ596762.1|BJ596762
EST:     GTTATGATCTTGAAATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|22132850|gb|BQ827398.1|BQ827398
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
EST: gi|162150420|gb|FC326692.1|FC326692
EST:     GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAG                         TTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC
genomic: GTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTC

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), 24 (downstream exon)
Score: 5

GATTTGTCGGGACGGCCATATTTGGGTTATGATCTTGAGATACCCACAGATCGAGTAGGGAACTACGACACACAGgtagctgatt ... ttttacgcagTTGGTTGAGCACTTTTTCCAATCCATGGCGAACACTTCAGGAATGACGCTCCACATTCGACAG




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