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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCGCGCCCCCGTGCACCACAGCATCACCTCGTCCACAACCTGCGACACCACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcctttcttttgactcggatgttagggtagttttcaattagtattgtacctgatcgtgaagctatggttttgatatggtgatacagcttgattg...

Basic information

species Physcomitrella patens
transcript PP1S319_46V6.1
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|208371438|gb|DC955774.1|DC955774
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
EST: gi|7067149|gb|AW497004.1|AW497004
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
EST: gi|7207426|gb|AW561428.1|AW561428
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCAACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
EST: gi|162248517|gb|FC425293.1|FC425293
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
EST: gi|162260313|gb|FC435616.1|FC435616
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
EST: gi|7147910|gb|AW509832.1|AW509832
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
EST: gi|162226255|gb|FC402963.1|FC402963
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
EST: gi|208353885|gb|DC942783.1|DC942783
EST:     CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTC                         GGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA
genomic: CACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAA

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: 34 (upstream exon), 35 (downstream exon)
Score: 19

ATGCGCGCCCCCGTGCACCACAGCATCACCTCGTCCACAACCTGCGACACCACTGCCTCCGCCTCCACCCGCATCGCCCTCCCTCCCGTCCATTGCTCTCgtaagctcct ... gttgtgtcagGGGAAGGTAGGGACTCGAAGGAGGTGGTGTCGACAGCTGAGGCATTTAAAAATGCCGCTTGCGGACTTCTTTTATCTTTCTCCTTAGCAACTGCATCACC




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