Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGATTAATTTAGAAAAGGCCTGTAACTTCGTTGCCAGCTGCAAAAACTTCGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatactgaacctagtatatatatagagatagatagagagggagagagagagagagaaacacatacacacacaccttattcaattttaggtgatagaatatctttatgagatgcatatctgttctgatcaggtgcattgttttgctgcag

Basic information

species Physcomitrella patens
transcript PP1S163_87V6.1
intron # 5
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|100388504|gb|BY952106.1|BY952106
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTTGT-GTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTT
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTT-GTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTT
EST: gi|208386165|gb|DC949076.1|DC949076
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
EST: gi|18338079|gb|BJ170103.1|BJ170103
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
EST: gi|208360087|gb|DC934948.1|DC934948
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTGTTGTGTAGGAGCTCTCG
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCG
EST: gi|37829001|gb|BJ587013.1|BJ587013
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
EST: gi|208362844|gb|DC950794.1|DC950794
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
EST: gi|208375311|gb|DC940449.1|DC940449
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
EST: gi|208388699|gb|DC953461.1|DC953461
EST:     CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAA                         CTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG
genomic: CGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTG

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: 27 (upstream exon), 22 (downstream exon)
Score: 2

AAGATTAATTTAGAAAAGGCCTGTAACTTCGTTGCCAGCTGCAAAAACTTCGACGGTGGCTTCGGTTGCGCTCCAGGCGGTGAATCCCACGCAGGCCAAAgtaagatact ... tttgctgcagCTTTTTGTTGTGTAGGAGCTCTCGCAATAGGCGGTGCTCTGCATCATGTTGATAAAGATCTATTAGGTTGGTGGCTTGCGGAACGGCAAGTTAAATCGGG




<











<


<