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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCACTTTCACCCCCTTCGCTTCGTCTCTCTGGGGTTCGGGGAGGAGCCTGCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattcacttgccgtttctactctcccaaacagtcgggatatttgtgaattgctgttgggttggacttcaatgagcaacgagaactctgccgaggag...

Basic information

species Physcomitrella patens
transcript PP1S90_139V6.2
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|18361549|gb|BJ193615.1|BJ193615
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|100372636|gb|BY948630.1|BY948630
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|67704267|gb|BJ964500.1|BJ964500
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|162209804|gb|FC385738.1|FC385738
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|162279385|gb|FC455932.1|FC455932
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|67575419|gb|BJ948243.1|BJ948243
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|100378011|gb|BY949635.1|BY949635
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|18349430|gb|BJ181479.1|BJ181479
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|100361031|gb|BY946879.1|BY946879
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|100378215|gb|BY949738.1|BY949738
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|18358319|gb|BJ190378.1|BJ190378
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|18367839|gb|BJ199922.1|BJ199922
EST:     GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTANCGAAAAAGANGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
EST: gi|208350777|gb|DC909908.1|DC909908
EST:     GCGATATTCTGTGAATGGGTCCTGTTTGGATCTGGGGCACGAATTTCAAG                         ATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT
genomic: GCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGT

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), 35 (downstream exon)
Score: 14

TCCACTTTCACCCCCTTCGCTTCGTCTCTCTGGGGTTCGGGGAGGAGCCTGCGATATTCTGTGAATGGGTCTTGTTTGGATCTGGGGCACGAATTTCAAGgttagattca ... gtgtgaacagATCGTACGAGTCGCAGGTCAGGACCTGTACTTGTCCTAGCGAAAAAGAGGTCAGGTTTCGCCGAATTGTTCTTGAACAAAAG




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