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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGCCTCAGGAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgataccctcatgactgttctcatactttttctgtagctgtgcttatctgggcaagccacatcatgccaattagcgtcgcttacgtcgaatgaagtgacgcatcaaggtagtgaaggcatgcatgccgcctacagagatctgatatttgttcataactggtgtgcag

Basic information

species Physcomitrella patens
transcript PP1S93_161V6.1
intron # 9
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|67695546|gb|BJ955779.1|BJ955779
EST:     GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAG                         GATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
genomic: GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgat ... tggtgtgcagGATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
EST: gi|162219606|gb|FC395602.1|FC395602
EST:     GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAG                         GATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
genomic: GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgat ... tggtgtgcagGATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
EST: gi|162247286|gb|FC421407.1|FC421407
EST:     GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAG                         GATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
genomic: GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgat ... tggtgtgcagGATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
EST: gi|162182993|gb|FC360559.1|FC360559
EST:     GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAG                         GATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
genomic: GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgat ... tggtgtgcagGATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
EST: gi|67697308|gb|BJ957541.1|BJ957541
EST:     GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAG                         GATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
genomic: GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgat ... tggtgtgcagGATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
EST: gi|162195160|gb|FC368822.1|FC368822
EST:     GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAG                         GATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA
genomic: GAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgat ... tggtgtgcagGATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA

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: 28 (upstream exon), 33 (downstream exon)
Score: 13

GCCGCCTCAGGAGCCGACATGGCTTGTATCATCTCGTATACATCGTCCACAAGTAATCAGgtgctttgat ... tggtgtgcagGATTTCTCTGTTGCTAAAGCTGTGTATCCTAACCTGGGATCAGTCAA




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