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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGATTTGGCGGACTGCATCGAGTGGCAGTCTGTGGAATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggatattttaaacacctgataatttaaaattcccgtttttacgaattttacaggcgtgctatttgaggagaatgtttaggatgtcgtaatttat...

Basic information

species Physcomitrella patens
transcript PP1S41_70V6.1
intron # 2
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|18326829|gb|BJ158829.1|BJ158829
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|208353940|gb|DC930094.1|DC930094
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|162244584|gb|FC423446.1|FC423446
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|162184696|gb|FC361934.1|FC361934
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|67702629|gb|BJ962862.1|BJ962862
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|7148048|gb|AW509970.1|AW509970
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|18351691|gb|BJ183743.1|BJ183743
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|67701947|gb|BJ962180.1|BJ962180
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|18327559|gb|BJ159562.1|BJ159562
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|67720438|gb|BJ970697.1|BJ970697
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|67709266|gb|BJ965082.1|BJ965082
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|162244583|gb|FC423445.1|FC423445
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|162241395|gb|FC418560.1|FC418560
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
EST: gi|18354254|gb|BJ186310.1|BJ186310
EST:     AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAG                         GGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG
genomic: AATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAG

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), 22 (downstream exon)
Score: 4

GTTGATTTGGCGGACTGCATCGAGTGGCAGTCTGTGGAATGTCTGAACGAAAATTCGTTGCATACCTCCGTCAACGCTCTTAAGCAGgttattggat ... ttgtattcagGGTTATAGGGAAGACAATGGTTTGTATTTAGAAAGTGACGCTGATGAGCAGCTACTACTCTATATCCCCTTCAACCAAGTGGTCAAGCTTCATTCCTTGA




<











<


<