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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGTTCCAGTGGCGGATGGTTACATCATTGGTAGCAGCATCAAGTCAATTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGAgtagcagccaaaaccttacctctcctagcacctcaatgacaacataactcagcttcataatgtgatagaatcatttctgatatgatgcatcgggcagaat...

Basic information

species Physcomitrella patens
transcript PP1S85_160V6.1
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|67570355|gb|BJ943179.1|BJ943179
EST:     TTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGA                         GAACGAGGCGAACCTGTGCCC
genomic: TTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGAgtagcagcca ... tttattctagGAACGAGGCGAACCTGTGCCC
EST: gi|208359135|gb|DC930467.1|DC930467
EST:     TTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGA                         GAACGAGGCGAACCTGTGCCCCC-GAGGAT
genomic: TTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGAgtagcagcca ... tttattctagGAACGAGGCGAACCTGTGCCCCCCGAGGAT
EST: gi|100365851|gb|BY967178.1|BY967178
EST:     TTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGA                         GAACGAGGCGAACCTGTGCCCCCCGAGGAT-CCNTTGGATATTGCCAGGAG
genomic: TTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGAgtagcagcca ... tttattctagGAACGAGGCGAACCTGTGCCCCCCGAGGATTCC-TTGGATATTGCCAGGAG

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), 31 (downstream exon)
Score: 7

TGTTGTTCCAGTGGCGGATGGTTACATCATTGGTAGCAGCATCAAGTCAATTCCTGTCGCAGGCCGGGATCTCTCTAATTTCGTTCAACAGCTAATGCGAgtagcagcca ... tttattctagGAACGAGGCGAACCTGTGCCCCCCGAGGATTCCTTGGATATTGCCAGGAGGGTGAAAGAAATGTATTGCTACACATGTGCTGATATTGCGAAG




<











<


<