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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTCTTCGTGGCCGAGCTTTGATCTGCTATTTCGATCGTCAAGGAGCTTAAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaagctcctgtggtgatactgatgcattgaattgtcatagattgttctgaatatggggtgttctttacagcggaatttggcgacagattgaact...

Basic information

species Physcomitrella patens
transcript PP1S295_6V6.1
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|208388026|gb|DC933146.1|DC933146
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|100418471|gb|BY957435.1|BY957435
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|162152799|gb|FC329805.1|FC329805
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|100357878|gb|BY946619.1|BY946619
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|18332273|gb|BJ164286.1|BJ164286
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|67569350|gb|BJ942174.1|BJ942174
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|67570400|gb|BJ943224.1|BJ943224
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|162275561|gb|FC451303.1|FC451303
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|208399505|gb|DC908502.1|DC908502
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|67578461|gb|BJ950628.1|BJ950628
EST:     AANCATACNTGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|100447905|gb|CJ972204.1|CJ972204
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|100353517|gb|BY964846.1|BY964846
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
EST: gi|18357428|gb|BJ189487.1|BJ189487
EST:     AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAG                         GTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA
genomic: AAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAA

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: 22 (upstream exon), 34 (downstream exon)
Score: 10

CATTCTTCGTGGCCGAGCTTTGATCTGCTATTTCGATCGTCAAGGAGCTTAAACATACATGCGAGCGTTATCTAATCCGGATTTGGTACCATTTGCCGAGgtaattgaag ... gatttttcagGTCTGACCCAGTTTATTCTCGATCAAGATTCACTCTTGTTCGCGACTAGAACTATACGAAGCAGAGTCTGAGGGAGGTGGACATAGTGCGGCAAGGGGTA




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