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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctcactctctgtctttgaacgctgattttctttgtttccgtgctctcctccctctcccgtgagttgtctcgagagatcgtacttggaaggccg...

Basic information

species Physcomitrella patens
transcript PP1S22_40V6.2
intron # 2
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|100369280|gb|BY948029.1|BY948029
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAGCTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18372366|gb|BJ203968.1|BJ203968
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18330622|gb|BJ162628.1|BJ162628
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTACGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|208355557|gb|DC906565.1|DC906565
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18354264|gb|BJ186320.1|BJ186320
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18360887|gb|BJ192950.1|BJ192950
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18354525|gb|BJ186581.1|BJ186581
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18328179|gb|BJ160183.1|BJ160183
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|100436607|gb|BY961302.1|BY961302
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18349735|gb|BJ181785.1|BJ181785
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18351918|gb|BJ183970.1|BJ183970
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18361631|gb|BJ193697.1|BJ193697
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18343880|gb|BJ175918.1|BJ175918
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|18358703|gb|BJ190762.1|BJ190762
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
EST: gi|208381231|gb|DC903065.1|DC903065
EST:     GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG                         GTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT
genomic: GACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGT

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), 33 (downstream exon)
Score: 14

ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAGgtgggggctc ... ttggaatcagGTGAAGGAACTTATAACTGATGGCATTGAGGTTATCTTTGTCACCTCTGGTGCGGTCGGCGTGGGCAGACAGAAATTGAGACACCAGAGAATGATGAACT




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