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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGACTGCGAACAATGTGGGGGCATTGTTGGTGGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgattccgtaaacctcacaactgggataattgtcaatgtatgtactgatcaattctctgagatgtaagatctgaagaagtgttatggttcattgt...

Basic information

species Physcomitrella patens
transcript PP1S4_235V6.1
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|162263996|gb|FC439239.1|FC439239
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|208356656|gb|DC922446.1|DC922446
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|162272111|gb|FC447905.1|FC447905
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|208353525|gb|DC938718.1|DC938718
EST:     GGTGAAGTCGGGAACTGANAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|162206080|gb|FC383073.1|FC383073
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATTTTTTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|100377459|gb|BY968532.1|BY968532
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAGAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|37830312|gb|BJ588324.1|BJ588324
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|162213118|gb|FC389542.1|FC389542
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|162272110|gb|FC447904.1|FC447904
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|162263995|gb|FC439238.1|FC439238
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTTTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|162206081|gb|FC383074.1|FC383074
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|162261665|gb|FC438098.1|FC438098
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|67696795|gb|BJ957028.1|BJ957028
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|208396121|gb|DC924587.1|DC924587
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|208358667|gb|DC957579.1|DC957579
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|67727244|gb|BJ977503.1|BJ977503
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
EST: gi|18339008|gb|BJ171034.1|BJ171034
EST:     GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAG                         ATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG
genomic: GGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAG

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), 35 (downstream exon)
Score: 31

ATGACTGCGAACAATGTGGGGGCATTGTTGGTGGTGAAGTCGGGAACTGAGAAAACCCTTGCCGGAATTATTACTGAAAGAGgttagtgatt ... ttgtgcacagATTACCTCAGAAAGATTATTGTACAGGGTAGATCTTCTAAGACGACTAAAGTTGGAGACATTATGACCGAAGAG




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