Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACCTTGTCCAGGTGATTAACGGTCAGCTTGTCGTTAATGGTTTCATCAGGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcctcatccccacactgtatttttgtgtggaatcctaggaactagttgtaagctctgtacattctactactgttctagcattagcctgtgggtgctgacgcaagaatttgttaaaccgtatttgcag

Basic information

species Physcomitrella patens
transcript PP1S9_440V6.1
intron # 2
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|162198997|gb|FC374545.1|FC374545
EST:     GTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162189174|gb|FC366709.1|FC366709
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162264038|gb|FC439892.1|FC439892
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162153130|gb|FC329536.1|FC329536
EST:     CACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: CACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162244931|gb|FC423537.1|FC423537
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162170912|gb|FC346603.1|FC346603
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|19785708|gb|BQ040373.1|BQ040373
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162266538|gb|FC441950.1|FC441950
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162181703|gb|FC358733.1|FC358733
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|162197832|gb|FC373613.1|FC373613
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
EST: gi|22131771|gb|BQ826791.1|BQ826791
EST:     GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATT                         AAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT
genomic: GGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGT

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: 33 (upstream exon), 27 (downstream exon)
Score: 40

TGACCTTGTCCAGGTGATTAACGGTCAGCTTGTCGTTAATGGTTTCATCAGGACAGAAGACTTCACCGCCGAACCACTTGCGTATGATATGGCGCCCATTgtacgaatcc ... gtatttgcagAAAATACCAGAAGATCACGTTTTTGTAATGGGGGATAATAGGAACAACAGTTACGATTCCCACGTCTG




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