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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCTAGAGGTGCTGGAAAAGGAAAAGAGGCAGGCGCACTGTGCAACAGTCGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgtttgcaggaaactccaagtttcaaattgatgtgtggttatttggtttgtgattttttcgaaattttctgtagccacgaaagcaatgaggggtg...

Basic information

species Physcomitrella patens
transcript PP1S32_198V6.1
intron # 6
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|67576495|gb|BJ949319.1|BJ949319
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|162186136|gb|FC361340.1|FC361340
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|162234389|gb|FC410135.1|FC410135
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|37844993|gb|BJ603001.1|BJ603001
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|208398602|gb|DC916123.1|DC916123
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|37823581|gb|BJ581647.1|BJ581647
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|162183482|gb|FC358774.1|FC358774
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|37848881|gb|BJ606889.1|BJ606889
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|37828828|gb|BJ586840.1|BJ586840
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
EST: gi|67700022|gb|BJ960255.1|BJ960255
EST:     CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATA                         TTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA
genomic: CGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAA

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: 20 (upstream exon), 27 (downstream exon)
Score: 8

GTGCTAGAGGTGCTGGAAAAGGAAAAGAGGCAGGCGCACTGTGCAACAGTCGGGGACCATCTCTTGCACCGACTTCGTGCTCTTCAAGACAAGCATGATAgtaagtgttt ... tttgatgcagTTATTGGTAACGTGCGGGGCCGGGGTCTCATGCTGGGCGTTGAGTTGGTAAAAGACCGAACAACCAAGGCTCCAGCGAAAGAAGAGACTCTTCTTCTTTT




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