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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcccatatcacacgagaccttcataatgagtgagtcggcttctacatgttttacaagagcacttgttcgcagtaatccttgaggcttgtaatgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGCGCAATCACG

Basic information

species Physcomitrella patens
transcript PP1S83_45V6.1
intron # 18
splice site 3'
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|162181729|gb|FC358759.1|FC358759
EST:     CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAG                         GCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
genomic: CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
EST: gi|162203519|gb|FC380435.1|FC380435
EST:     CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAG                         GCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
genomic: CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
EST: gi|162154519|gb|FC330521.1|FC330521
EST:     CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAG                         GCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
genomic: CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
EST: gi|162150063|gb|FC326594.1|FC326594
EST:     CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAG                         GCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
genomic: CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
EST: gi|162203518|gb|FC380434.1|FC380434
EST:     CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAG                         GCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
genomic: CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
EST: gi|162150064|gb|FC326595.1|FC326595
EST:     CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAG                         GCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCA
genomic: CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCA
EST: gi|162252540|gb|FC427856.1|FC427856
EST:     CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAG                         GCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC
genomic: CTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGC

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: 35 (upstream exon), 35 (downstream exon)
Score: 23

GAGCAAGGTGATTTGAAACTGAGAGTGCGTGTTTTGGAGTCTGAAAGAGCATTCAAACGTGTTGCTACGATGCAGCAGACAATTGGCCAGgtgatttatc ... atgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGCGCAATCACG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttttacaagagcacttgttcgcagtaatccttgaggcttgtaatgtgtgcagGCTATTCTTGCAGCTACTTGTCTACAAATCGCCACTATGTTGCACCTAAGCGCAATCACG
                                        ttgtaat  TA-rich tract