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

gtatggaagtgtaatctcatttagggatttggttgatatggttatgtgtttgcttcatgaaatacggtttacttgaattaagcttaagcgttttgtgcgattgatcgtctttggactagtaactttagtctgattgtttatatatcgtcattcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACAAGTGAGGTCAGTATATCATTGACATTGGACCCAGCGAAGCTCTGGGAAC

Basic information

species Physcomitrella patens
transcript PP1S286_35V6.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S286_35V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: LOC_Os03g63330.1 (Oryza sativa), 3'ss of exon 9
gtatggaagtgtaatctcatttagggatttggttgatatggttatgtgtttgcttcatgaaatacggtttacttgaattaagcttaagcgttttgtgcgattgatcgtctttggactagtaactttagtctgattgtttatatatcgtcattcttat-cagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACAAGTGAGGTCAGTATATCATTGACATTGGACCCAGCGAAGCTCTGGGAAC
                                                                     || || ||| | ||| |   | | |    | ||  |  |  |||   ||   |  |||||    ||||| |||| |      |||| | ||||| ||| | | ||||||||| ||||| |||||||| |||   ||||| || ||||| |||||||||||||||||| | || ||| | || || |||   |
--------------------------------------------------------------------gtattttaat-atgctcat-tgctcttcctgtttatt--ttgttgacttatgcatattagta-atttgttcatatttttatgctcttgtgcagGTTTTCTCAATATTTGAAGATTTAGGTATCTCTGTTGATTGTGTGGCTACCAGTGAAGTCAGTATATCATTGACACTAGATCCATCAAAACTATGGTGTC
















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|100397353|gb|BY972456.1|BY972456
EST:     TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAG                         GTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
genomic: TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAGgtatggaagt ... ttcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtctttggactagtaactttagtctgattgtttatatatcgtcattcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACAAGTGAGGTCAGTATATCATTGACATTGGACCCAGCGAAGCTCTGGGAAC
                                          tcattctt  CT-rich tract
                         tgattgtttatatat  TA-rich tract