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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGGCTGGCCAGACATGCGGCTACCCATTCTTTACACCATGTCGTGGCCAGAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttacttttgtttcatattgtattcgtatagtccaatatccattgattaaataccacatgactttctctcttatttaatcacctgccaagtgttca...

Basic information

species Physcomitrella patens
transcript PP1S73_243V6.1
intron # 12
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|162204528|gb|FC381938.1|FC381938
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|16137456|gb|BI894320.1|BI894320
EST:     GAGCGTATTCCCTGTTCAGAGAAAACATGGCCTCGTTTGGACTTTCTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCC
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCC
EST: gi|162244459|gb|FC422632.1|FC422632
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|162155914|gb|FC332463.1|FC332463
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAG                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACG
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACG
EST: gi|67692973|gb|BJ953206.1|BJ953206
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|162155913|gb|FC332462.1|FC332462
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|162244458|gb|FC422631.1|FC422631
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|162171164|gb|FC347778.1|FC347778
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|162160112|gb|FC335982.1|FC335982
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|67694754|gb|BJ954987.1|BJ954987
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|208348677|gb|DC926352.1|DC926352
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
EST: gi|162204514|gb|FC381937.1|FC381937
EST:     GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT
genomic: GAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCAT

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: 23 (upstream exon), 13 (downstream exon)
Score: 1

TAGGCTGGCCAGACATGCGGCTACCCATTCTTTACACCATGTCGTGGCCAGAGCGTATTCCCTGTTCAGAGAAGACATGGCCTCGTTTGGACTTTTTCAAgtgagttact ... ttgtgagcagAATGGGAAATCTTACTTTCATGAAGCCAGACCACGCCAAATACCCCTCCATGGCACTCTCTTACAGTGCCGGTCGGGCTGGTGGGACGATGACCGGTGTG




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