Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCAACGAAGGAGCAAGCAGGCAAGGCATCGGAGGATGCGCAAGAGAAGTCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaatgcctcaggaaaggaagtcgacatcgcatctgcgactgctggcgacactccagcttttgagcaatcgctgtagactaatgtgtagtttcattacttcacgcttggaaagaataagtacccctccagctctaggtttagatgctgatcgcggatgtcttcgaattatgatgcgcag

Basic information

species Physcomitrella patens
transcript PP1S75_99V6.1
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|162272565|gb|FC447710.1|FC447710
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
EST: gi|162274517|gb|FC450960.1|FC450960
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
EST: gi|162265777|gb|FC442364.1|FC442364
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
EST: gi|67578432|gb|BJ950599.1|BJ950599
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
EST: gi|162272564|gb|FC447709.1|FC447709
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
EST: gi|67701332|gb|BJ961565.1|BJ961565
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
EST: gi|18337923|gb|BJ169947.1|BJ169947
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
EST: gi|67701330|gb|BJ961563.1|BJ961563
EST:     TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAG                         ATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT
genomic: TCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCAT

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), 34 (downstream exon)
Score: 10

ATGCAACGAAGGAGCAAGCAGGCAAGGCATCGGAGGATGCGCAAGAGAAGTCTACGTTTGCTGGTGACAGCGGCGTGACCTGGGACAATGCACGGAACAGgtatgtcaat ... tgatgcgcagATTGTGATGCTGAGGGATGAGAGATGGTTATCCCACTGTGCAGTCAGGCATCAGAATAACTTCTGCGAACGTAAATTTTTGAGCTCATGTGAAAAGATAG




<











<


<