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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttacatacccctgcattcatacgcagtgtatccgaacaattctgatttgacaattattttctcttttatgaattattgtattttgtcaagatacttacgaatgttcttgatcggctttacgcaatacatcggttctcgaaagtcacctctcatgacgaggaggcattgtcatggttgcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTACAAGCCTACCGGGATTTCGGCGCTCACATTGGATAAGTTTCAACTTGGGA

Basic information

species Physcomitrella patens
transcript PP1S62_94V6.4
intron # 4
splice site 3'
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|162251336|gb|FC427978.1|FC427978
EST:     TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACG                         GCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
genomic: TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACGgtatttacat ... gcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
EST: gi|162150866|gb|FC327346.1|FC327346
EST:     TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACG                         GCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
genomic: TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACGgtatttacat ... gcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
EST: gi|100367410|gb|BY984691.1|BY984691
EST:     TTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACG                         GCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
genomic: TTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACGgtatttacat ... gcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
EST: gi|162274344|gb|FC450312.1|FC450312
EST:     TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACG                         GCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGT
genomic: TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACGgtatttacat ... gcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGT
EST: gi|162179908|gb|FC355979.1|FC355979
EST:     TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACG                         GCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
genomic: TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACGgtatttacat ... gcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
EST: gi|162268968|gb|FC445460.1|FC445460
EST:     TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACG                         GCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC
genomic: TGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACGgtatttacat ... gcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTAC

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: 27 (upstream exon), 31 (downstream exon)
Score: 2

GTGAACTGGTTGAACTCTATGTTGGAGAAGTTCTGGCCGTCAATATTAACGgtatttacat ... gcgcgtgcagGCCACCGAAGATATGGTAAAAATGAAGCTTGCTCCAGTGTTAGAATCTTACAAGCCTACCGGGATTTCGGCGCTCACATTGGATAAGTTTCAACTTGGGA




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