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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGCTTTGGCATCGATCCCTGCTTGTTCTTCTATTTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTGgtaattcacgcccccagtccctggcgtccattaactgttgcctttccatctattcgggattcgtagagtgggtcttcttcttcttcttcttcttcttcttcttcttctactacttgggcttacatgcttacattctagctttgttgcaatttgatctcag

Basic information

species Physcomitrella patens
transcript PP1S7_147V6.1
intron # 1
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|18345589|gb|BJ177632.1|BJ177632
EST:     GCTTGAGGTCCACGCCATGTG                         CTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
genomic: GCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
EST: gi|18366459|gb|BJ198538.1|BJ198538
EST:     TTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTG                         CTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
genomic: TTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
EST: gi|100369228|gb|BY985073.1|BY985073
EST:     TTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTG                         CTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
genomic: TTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
EST: gi|18342421|gb|BJ174456.1|BJ174456
EST:     GCTTGAGGTCCACGCCATGTG                         CTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
genomic: GCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
EST: gi|18326268|gb|BJ158267.1|BJ158267
EST:     ATCCTTGCTCTGCTTGAGGTCCACGCCATGTG                         CTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
genomic: ATCCTTGCTCTGCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
EST: gi|18343291|gb|BJ175329.1|BJ175329
EST:     GCTCTGCTTGAGGTCCACGCCATGTG                         CTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
genomic: GCTCTGCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
EST: gi|100393532|gb|BY953438.1|BY953438
EST:     TTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTG                         CTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG
genomic: TTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGG

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: 21 (upstream exon), 15 (downstream exon)
Score: 1

ATGGCTTTGGCATCGATCCCTGCTTGTTCTTCTATTTCTACTTCTTCATATTCATCCTTGCTCTGCTTGAGGTCCACGCCATGTGgtaattcacg ... ttgatctcagCTATGGCGGATGGTGAGCTCCAGCCCGCATTATTACTACCGTAGCCGAAGGTGGTTCCAGTTTCGTG




<











<


<