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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTAGCCATGGCTGCGGATGACAGCGATGCGCAGCTCTCCGCGAAGATTGCCCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggatttcatgagtgcggctttcaatctgtggctggacgattaattttgtgaattgcaccagctcgtgtttcctgaatttctggtattgtcctag...

Basic information

species Physcomitrella patens
transcript PP1S79_94V6.1
intron # 1
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|18354073|gb|BJ186128.1|BJ186128
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|100384461|gb|BY987320.1|BY987320
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|18355214|gb|BJ187273.1|BJ187273
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|100422965|gb|BY958088.1|BY958088
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|162214903|gb|FC390463.1|FC390463
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|100387881|gb|BY970626.1|BY970626
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|18360727|gb|BJ192790.1|BJ192790
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|100356058|gb|BY946175.1|BY946175
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|208360015|gb|DC939319.1|DC939319
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
EST: gi|208360201|gb|DC939198.1|DC939198
EST:     CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAG                         AGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG
genomic: CCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGG

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

TTAGCCATGGCTGCGGATGACAGCGATGCGCAGCTCTCCGCGAAGATTGCCCACGTCTCGCACATCGTATTTGACCTGGATGGCACTCTGCTTGATACAGgtttgcggat ... gtgggtgaagAGTCGATTGCGGATGAGGTTCTGGCGATAGTACTCACACGCCATGGGAAGGTTTGGGATGGAAGAGGCGCTCAAAATCGAATGGGTAAACGGCCTCTAGA




<











<


<