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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcacttaactgagctattctcttcaatatcttgatcaattcgcgtatttggttaagtttcgtgctgcataattgttgattttttcgcgaattact...

Basic information

species Physcomitrella patens
transcript PP1S130_217V6.1
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|162247133|gb|FC421358.1|FC421358
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|100359970|gb|BY965963.1|BY965963
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTTCTGGA-CTGCCTCAGAGTCCCTGT
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTT-CTGGAACTGCCTCAGAGTCCCTGT
EST: gi|18341730|gb|BJ173765.1|BJ173765
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|162206027|gb|FC382812.1|FC382812
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|162220662|gb|FC396874.1|FC396874
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|67699719|gb|BJ959952.1|BJ959952
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|162213862|gb|FC389853.1|FC389853
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|162243636|gb|FC421809.1|FC421809
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|37830057|gb|BJ588069.1|BJ588069
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|37821367|gb|BJ579433.1|BJ579433
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|162206028|gb|FC382813.1|FC382813
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|162213861|gb|FC389852.1|FC389852
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|162247132|gb|FC421357.1|FC421357
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
EST: gi|18350731|gb|BJ182782.1|BJ182782
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAG
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAG
EST: gi|162220663|gb|FC396875.1|FC396875
EST:     AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA                         GCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA
genomic: AACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTA

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: 21 (upstream exon), 17 (downstream exon)
Score: 5

GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAAgtaatgcact ... tgttgtgcagGCAACTGGCGAAGGACTTCGTGGTTTCTGGAACTGCCTCAGAGTCCCTGTATGGTGCTTGCGAGTCTATGTATAAACCTGATTTG




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