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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTAAGTCATCATTTCTTCATCCTATGACTGCTAATCGCTCCAATCGAGCGATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttcctcttcgttaatcctttcctgccctaaacttcttgttcgtggtttctctgatgttttctattattcattgtctgtcagattgtttgccag...

Basic information

species Physcomitrella patens
transcript PP1S276_108V6.1
intron # 1
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|162160374|gb|FC337375.1|FC337375
EST:     GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAG                         CCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
genomic: GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttc ... gcgtttgcagCCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
EST: gi|162155161|gb|FC331670.1|FC331670
EST:     GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAG                         CCAGAGATATGGACGACTTGGTGGTATGCTTT
genomic: GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttc ... gcgtttgcagCCAGAGATATGGACGACTTGGTGGTATGCTTT
EST: gi|208371546|gb|DC936267.1|DC936267
EST:     GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAG                         CCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
genomic: GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttc ... gcgtttgcagCCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
EST: gi|162263877|gb|FC438665.1|FC438665
EST:     GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAG                         CCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
genomic: GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttc ... gcgtttgcagCCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
EST: gi|162257882|gb|FC434080.1|FC434080
EST:     GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAG                         CCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
genomic: GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttc ... gcgtttgcagCCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
EST: gi|208388159|gb|DC933209.1|DC933209
EST:     GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAG                         CCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT
genomic: GATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttc ... gcgtttgcagCCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATT

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: 16

CTTAAGTCATCATTTCTTCATCCTATGACTGCTAATCGCTCCAATCGAGCGATCAGGAAAGGTGTCACTTCACCTAGGTTGCATTGCACCACTTCCCAAGgtgggagttc ... gcgtttgcagCCAGAGATATGGACGACTTGGTGGTATGCTTTGGAGAGCTCCTGATAGATTTTGTGCCCACTGTGGGCGGTCTATCGCTTGCTGAAGCTCCCGCATTCAA




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