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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGCTTTCTGTTGCTGCTCTGCCTCAGACTCTGGCTCTGTCTCTCGCCGTGCCATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAGgttctccctcttccccctcgtcttcttcttcttctgtcctcatcgcgatcgcattttattctatttttacgtatctgaatttgctcgtctgtttggtcgg...

Basic information

species Physcomitrella patens
transcript PP1S60_129V6.1
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|7584254|gb|AW700150.1|AW700150
EST:     CGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: CGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|22132526|gb|BQ827212.1|BQ827212
EST:     CCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: CCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|22132462|gb|BQ827175.1|BQ827175
EST:     CCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: CCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|67574644|gb|BJ947468.1|BJ947468
EST:     ATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: ATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|15729419|gb|BI741306.1|BI741306
EST:     GCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: GCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|162224222|gb|FC399494.1|FC399494
EST:     ATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGATTGCGGAAGTAGCCATCTGAGATGA
genomic: ATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|162227636|gb|FC402629.1|FC402629
EST:     CCCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGATTGCGGAAGTAGCCATCTGAGATGA
genomic: CCCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|67698060|gb|BJ958293.1|BJ958293
EST:     ATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: ATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|18371364|gb|BJ202966.1|BJ202966
EST:     GTGCCATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: GTGCCATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
EST: gi|18346800|gb|BJ178845.1|BJ178845
EST:     GTGCCATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAG                         AATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA
genomic: GTGCCATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGA

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), 32 (downstream exon)
Score: 15

TCTTGCTTTCTGTTGCTGCTCTGCCTCAGACTCTGGCTCTGTCTCTCGCCGTGCCATTCCTCACATCCCCCTTCACCCGCAGTTCCACCTCTATCGCCAGgttctccctc ... aactgggcagAATTTAGAGACTTTTCGTGCTCAAGAGTGCGGAAGTAGCCATCTGAGATGATTACAGGGGGCTCTGTAGTTG




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