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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTGCACGGTGCAGCGTTGGGAGGCAAGGAGGTGGAGGCGACTCGGCAGAACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaattgcgggtgtttttcccgagcacgtggttgtaatgtggctctgtggacgatgactgtagggggtgggctgttctagtgtgtgatatgaag...

Basic information

species Physcomitrella patens
transcript PP1S120_127V6.1
intron # 4
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|162230960|gb|FC407215.1|FC407215
EST:     AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162219706|gb|FC395910.1|FC395910
EST:     AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162176306|gb|FC352763.1|FC352763
EST:     AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162166851|gb|FC343028.1|FC343028
EST:     GCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: GCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162198697|gb|FC374817.1|FC374817
EST:     AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162219889|gb|FC396704.1|FC396704
EST:     AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|100356519|gb|BY946406.1|BY946406
EST:     AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|100400286|gb|BY954401.1|BY954401
EST:     TATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: TATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162209022|gb|FC385574.1|FC385574
EST:     AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA

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), 35 (downstream exon)
Score: 41

CTGTGCACGGTGCAGCGTTGGGAGGCAAGGAGGTGGAGGCGACTCGGCAGAACCTGGGATGGCCATATGAGCCCTTCCACGTGCCCGACGAGGTCAAGAGgtgagtacaa ... tctgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGAAGCTGCTGTGGAGGAGTACGCACAGAAGTACCCTGAGGAGGGTGCCGAG




<











<


<