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

gtaaagggcggagttgtacttggtgctcctctggattcctcaggggtttacataggggtttagagctgaataccgtactccgtttgtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG

Basic information

species Physcomitrella patens
transcript PP1S22_40V6.2
intron # 1
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|100369280|gb|BY948029.1|BY948029
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18372366|gb|BJ203968.1|BJ203968
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18330622|gb|BJ162628.1|BJ162628
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|208355557|gb|DC906565.1|DC906565
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18354264|gb|BJ186320.1|BJ186320
EST:     TGGACATGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18360887|gb|BJ192950.1|BJ192950
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18354525|gb|BJ186581.1|BJ186581
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18328179|gb|BJ160183.1|BJ160183
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|100436607|gb|BY961302.1|BY961302
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18349735|gb|BJ181785.1|BJ181785
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18351918|gb|BJ183970.1|BJ183970
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18361631|gb|BJ193697.1|BJ193697
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18343880|gb|BJ175918.1|BJ175918
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|18358703|gb|BJ190762.1|BJ190762
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
EST: gi|208381231|gb|DC903065.1|DC903065
EST:     TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAG                         ATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG
genomic: TGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGG

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), 34 (downstream exon)
Score: 9

TCTGTGGCTATGCATCTGCAGCAACGCTGCTTTGCTCAATTGCATCACAATGGACAGGTCGCGGATATTCATTAGAGACGCCAAAAGAGTCGTAATTAAGgtaaagggcg ... gtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caggggtttacataggggtttagagctgaataccgtactccgtttgtgtacgcagATCGGAACGGCGGTTGTAACTCGACATGACGGGAGGCTTGCCCTTGGCAGGCTCGGCGCTATTTGCGAACAG
      tttacata  TA-rich tract