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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTATGCCATTAGCACTTTCAGGTACCCGTCCAATGCTGGAGCGCATGGACTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaattaccctttcccactccccatgtgaagcattcaatcttttccatgtaatttttcatgccctgctctgttctgatttttatgtgtcttctttttcttatctcctgttattattgattattttacag

Basic information

species Physcomitrella patens
transcript PP1S49_285V6.1
intron # 6
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|67692356|gb|BJ952589.1|BJ952589
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
EST: gi|100388672|gb|BY970820.1|BY970820
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGGTTACGATGATGACGACATGTTCATCCTGATGGC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGC
EST: gi|100392123|gb|BY953205.1|BY953205
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCNTAA-GAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCA
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGC-TAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCA
EST: gi|208377279|gb|DC932429.1|DC932429
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
EST: gi|100394360|gb|BY972030.1|BY972030
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCC
EST: gi|100416278|gb|BY975313.1|BY975313
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTATAGAGGTTTACGATGATGACGAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGAC
EST: gi|208384727|gb|DC915274.1|DC915274
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
EST: gi|162215240|gb|FC390813.1|FC390813
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
EST: gi|208346693|gb|DC913339.1|DC913339
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCNGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
EST: gi|100408084|gb|BY955901.1|BY955901
EST:     CTGGGGCGAGTATATCGAGGAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTT-ACGATGATGACGAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGAC
EST: gi|67569115|gb|BJ941939.1|BJ941939
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCAC
EST: gi|100382686|gb|BY986915.1|BY986915
EST:     CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAG                         GTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGA
genomic: CTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGA

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: 12

GGTATGCCATTAGCACTTTCAGGTACCCGTCCAATGCTGGAGCGCATGGACTGGGGCGAGTATATCGAGAAGGACACCTTCATTAGATTCGGCGCTGTAGgtttgaatta ... tattttacagGTGCTAAAGAGGTTTACGATGATGACGACATGTTCATCCTGATGGCACCACAAAATGCTGTTGGAAATTGTATTATTGAT




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