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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATACAAGACTGCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattctttgaagcacaactctagcattttcttcatagtaataaattagtcttagtctatgagtacgctagtttccacaacaggttaaacttagtg...

Basic information

species Physcomitrella patens
transcript PP1S46_64V6.1
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|100388749|gb|BY970897.1|BY970897
EST:     GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCT                         GAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
genomic: GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattc ... atctgtgcagGAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
EST: gi|208353889|gb|DC942787.1|DC942787
EST:     GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCT                         GAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
genomic: GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattc ... atctgtgcagGAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
EST: gi|208356778|gb|DC906440.1|DC906440
EST:     GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCT                         GAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
genomic: GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattc ... atctgtgcagGAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
EST: gi|18354047|gb|BJ186102.1|BJ186102
EST:     GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCT                         GAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
genomic: GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattc ... atctgtgcagGAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
EST: gi|18325412|gb|BJ157408.1|BJ157408
EST:     GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCT                         GAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
genomic: GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattc ... atctgtgcagGAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
EST: gi|162189180|gb|FC365987.1|FC365987
EST:     GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCT                         GAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA
genomic: GCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattc ... atctgtgcagGAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGA

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: 32 (upstream exon), 30 (downstream exon)
Score: 4

GCATACAAGACTGCTACCTTCGTCTCCTATGGATACATGAACTGGACTCGGGGATCTTTCCTgtatgaattc ... atctgtgcagGAAGCACCAGAAGGAGTTTAAGGATCAGGAAATGGCAGTGGACTTAACAGACAAACAGTGCCTGGTGACAGGTGCCAATACAGGCATTGGATATGCCTCT




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