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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcgaaggtttaagaactttatgaagtagtcgccgtcaagaaaaaaaattccacttcttttgaagtcattttgaagtcttacttgtgttcgtgtgcgagtgatcag

Basic information

species Physcomitrella patens
transcript PP1S37_33V6.2
intron # 16
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|162176172|gb|FC351914.1|FC351914
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|162165708|gb|FC340889.1|FC340889
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|208386538|gb|DC952747.1|DC952747
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|67697462|gb|BJ957695.1|BJ957695
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|37823157|gb|BJ581223.1|BJ581223
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|208388659|gb|DC953435.1|DC953435
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|208363044|gb|DC957985.1|DC957985
EST:     TATCGAAATNGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|37847922|gb|BJ605930.1|BJ605930
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|37835509|gb|BJ593521.1|BJ593521
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|162152561|gb|FC328839.1|FC328839
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|67724660|gb|BJ974919.1|BJ974919
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|162194037|gb|FC370212.1|FC370212
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|208356950|gb|DC922286.1|DC922286
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|162234310|gb|FC409848.1|FC409848
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|37825198|gb|BJ583264.1|BJ583264
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
EST: gi|162202112|gb|FC378033.1|FC378033
EST:     TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAG                         GTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG
genomic: TATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAG

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: 34 (upstream exon), 35 (downstream exon)
Score: 18

GTATCGAAATTGTTTGAGGTGGTTCCTCCTATTCTTTTGGCAGGCGGAAAGgtaagtttcg ... gagtgatcagGTCAAGAACCCCTGGCCTAATGTGGATGCTCACAGCGGTGTCCTGCTTCAGTACTACGGCTTGAAAGAACAGAA




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