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

...taatttcgattttaaacttccttttccttaatctcctcgattctgtagagaatgctttagattcaaaattcatttaccttttgtaatggtgttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG

Basic information

species Physcomitrella patens
transcript PP1S17_286V6.1
intron # 2
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|100371244|gb|BY986009.1|BY986009
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGGTTTTGATG                         GTCACCGTGGCTCCCGG
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGG
EST: gi|100370198|gb|BY985291.1|BY985291
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100370539|gb|BY985459.1|BY985459
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|162157033|gb|FC333395.1|FC333395
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100386555|gb|BY951351.1|BY951351
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100433927|gb|BY978890.1|BY978890
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100410253|gb|BY974485.1|BY974485
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|208378728|gb|DC914702.1|DC914702
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100443910|gb|BY982138.1|BY982138
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100407865|gb|BY955817.1|BY955817
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|18326747|gb|BJ158746.1|BJ158746
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|162243725|gb|FC421846.1|FC421846
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100404600|gb|BY973659.1|BY973659
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100447095|gb|CJ971394.1|CJ971394
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100447779|gb|CJ972078.1|CJ972078
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|18355150|gb|BJ187209.1|BJ187209
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100448765|gb|CJ973064.1|CJ973064
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100390401|gb|BY952809.1|BY952809
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100426769|gb|BY977353.1|BY977353
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100401328|gb|BY990947.1|BY990947
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100356349|gb|BY946320.1|BY946320
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100360286|gb|BY966100.1|BY966100
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100446094|gb|CJ970393.1|CJ970393
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100447201|gb|CJ971500.1|CJ971500
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100387473|gb|BY988344.1|BY988344
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|208384897|gb|DC907510.1|DC907510
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|208393420|gb|DC942504.1|DC942504
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
EST: gi|100367904|gb|BY984806.1|BY984806
EST:     GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATG                         GTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA
genomic: GATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGA

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), 35 (downstream exon)
Score: 42

TCAAGTTTGCGTGGAAAGAGAGCCTCAATGGAGGATTTCCTTGATGCCCAGATATCACAGGTTGACGGTGTGACGGTTGGATTATTCGGCGTTTTTGATGgttagttgat ... gttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagagaatgctttagattcaaaattcatttaccttttgtaatggtgttgttgcagGTCACGGTGGCTCCCGGGCAGCTGATTATGTGAAGCAGAATCTTTTCAAGAATTTGCGAAATCACCCTGCATTTGTGACCGACACTAGGCTCGCCATTG
          tttagattcaaaattc  TA-rich tract