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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATTACCCATCCTATTCCTGATCTTACAGGATACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAGgtattggttctaacttcgagccaggcttaacaatactcatattcttgcatccagtttcatcataggagatacttcttcccatttgatcgttagtgatggaaggttgtaagcctttagttgatctaatgtaatgatgatgatgcag

Basic information

species Physcomitrella patens
transcript PP1S85_75V6.1
intron # 10
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|37827904|gb|BJ585916.1|BJ585916
EST:     ATCGGCAGTTACAAAATAGACAG                         ATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
genomic: ATCGGCAGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
EST: gi|208370179|gb|DC944404.1|DC944404
EST:     ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAG                         ATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
genomic: ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
EST: gi|162274940|gb|FC450591.1|FC450591
EST:     ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAG                         ATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
genomic: ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
EST: gi|162274941|gb|FC450592.1|FC450592
EST:     ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAG                         ATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
genomic: ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
EST: gi|208345114|gb|DC925440.1|DC925440
EST:     ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAG                         ATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
genomic: ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
EST: gi|67698442|gb|BJ958675.1|BJ958675
EST:     ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAG                         ATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
genomic: ACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
EST: gi|18337987|gb|BJ170011.1|BJ170011
EST:     AGTTACAAAATAGACAG                         ATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG
genomic: AGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG

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: 29 (upstream exon), 33 (downstream exon)
Score: 4

ATATTACCCATCCTATTCCTGATCTTACAGGATACATTACAGAAGGTCAAATTTACGTGGATCGGCAGTTACAAAATAGACAGgtattggttc ... gatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG




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