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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCTTATCTGATGCCGTTCCTGTCTGGGGAGTGGATGAGCTCTTGAATTTACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacactgatcaaacttggcgtgaactagatactagttcaacttttctgctttctctcaacttacgtaattgtctttgttctatttcaagtcttttttgcggaattgttttgcgcagttgtttcaccccatgcttcttaattgaaaaactgttataattgcag

Basic information

species Physcomitrella patens
transcript PP1S98_84V6.3
intron # 3
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|162245599|gb|FC424127.1|FC424127
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|37827665|gb|BJ585677.1|BJ585677
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208355263|gb|DC949799.1|DC949799
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|37840903|gb|BJ598911.1|BJ598911
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162229734|gb|FC404018.1|FC404018
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|18338873|gb|BJ170899.1|BJ170899
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208382037|gb|DC928481.1|DC928481
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208385375|gb|DC956615.1|DC956615
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|67692483|gb|BJ952716.1|BJ952716
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162233740|gb|FC410006.1|FC410006
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208384366|gb|DC928117.1|DC928117
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162232467|gb|FC408862.1|FC408862
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162245598|gb|FC424126.1|FC424126
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|208357901|gb|DC918649.1|DC918649
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|18363745|gb|BJ195817.1|BJ195817
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|67694456|gb|BJ954689.1|BJ954689
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|18336726|gb|BJ168749.1|BJ168749
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162225033|gb|FC401449.1|FC401449
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
EST: gi|162232466|gb|FC408861.1|FC408861
EST:     TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAG                         GCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG
genomic: TACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATG

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), 33 (downstream exon)
Score: 42

CTTCTTATCTGATGCCGTTCCTGTCTGGGGAGTGGATGAGCTCTTGAATTTACCAGAATTGGCGGAAGGTTATCACATAGGTGATATCGGTTCCTCCAAGgtacatacac ... ataattgcagGCTGACATGAACAATCTTGGTGATTACGACTGGATGGCGGATTTGAGCATGTTCGAAGAGCAGATGTACGCGGCTGGGTCGTTCCATGAAGTACCCCAAT




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