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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGTCAGTGCTTTAGCCAAATTTGGAGCCGTAGTTGAGGGTTTGAGGCCACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaattaaccttgtggaatttttgtcgagtgcatgggtgttggtatctggagaatgagaatggtctctctgccttcaagggtttctatgttttatt...

Basic information

species Physcomitrella patens
transcript PP1S15_298V6.2
intron # 10
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|162174130|gb|FC350333.1|FC350333
EST:     CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAG                         GTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
EST: gi|162151629|gb|FC327758.1|FC327758
EST:     CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAG                         GTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
EST: gi|162177638|gb|FC353224.1|FC353224
EST:     CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAG                         GTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
EST: gi|162151227|gb|FC327187.1|FC327187
EST:     CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAG                         GTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
EST: gi|162150207|gb|FC326292.1|FC326292
EST:     CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAG                         GTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
EST: gi|18363604|gb|BJ195676.1|BJ195676
EST:     CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAG                         GTGCGTGATANANCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
EST: gi|161984098|gb|EE296401.1|EE296401
EST:     ACGATAATGATGATGAG                         GTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: ACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
EST: gi|162270704|gb|FC446317.1|FC446317
EST:     CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAG                         GTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC
genomic: CACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGAC

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: 35 (upstream exon), 15 (downstream exon)
Score: 4

TGCTGTCAGTGCTTTAGCCAAATTTGGAGCCGTAGTTGAGGGTTTGAGGCCACGGATTCTTATACTGCTTCGAAGGTGTTTGTACGATAATGATGATGAGgtacttaatt ... attctcgcagGTGCGTGATAGAGCCACTCTCTATTTAAGTCTTCTCTCAGATGAACCAGACGCTGCTCAAGATGACGCTAAAGCTTTCTTGTTTCAAGATTTGGACGTGC




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