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

GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtagaactgatcctgcatcatccttttcttgtaaggctttcagaccaaatcgaatcgtcgttgctggatgtctgtactccttcgcccttccgtt...

Basic information

species Physcomitrella patens
transcript PP1S41_70V6.1
intron # 6
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|18334808|gb|BJ166825.1|BJ166825
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|18326829|gb|BJ158829.1|BJ158829
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAA
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAA
EST: gi|208372651|gb|DC944630.1|DC944630
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|208353940|gb|DC930094.1|DC930094
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|162241394|gb|FC418559.1|FC418559
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|162244584|gb|FC423446.1|FC423446
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|67721131|gb|BJ971390.1|BJ971390
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|162184696|gb|FC361934.1|FC361934
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|7148048|gb|AW509970.1|AW509970
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|18351691|gb|BJ183743.1|BJ183743
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|19780510|gb|BQ039570.1|BQ039570
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|37831031|gb|BJ589043.1|BJ589043
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|67720438|gb|BJ970697.1|BJ970697
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTNTCAGAGTGTGNGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGNGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|67709266|gb|BJ965082.1|BJ965082
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|162244583|gb|FC423445.1|FC423445
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|162241395|gb|FC418560.1|FC418560
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCT
EST: gi|18354254|gb|BJ186310.1|BJ186310
EST:     GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAG                         TTTGACACTATTTGTTGA
genomic: GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGA

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: 23 (upstream exon), 35 (downstream exon)
Score: 13

GGAAAGCCCATACCGCTCAAATACGTCAAGTTTCAGAGTGTGCGAAGgtgagtgtag ... gttttcacagTTTGACACTATTTGTTGAGGACAATCAAGGAGGAGGCGAAGTAACCCAGCTTCAGAAACTCGCTATTGTTGGTAGCAC




<











<


<