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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggaagtgtaatctcatttagggatttggttgatatggttatgtgtttgcttcatgaaatacggtttacttgaattaagcttaagcgttttgtgcgattgatcgtctttggactagtaactttagtctgattgtttatatatcgtcattcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACAAGTGAGGTCAGTATATCATTGACATTGGACCCAGCGAAGCTCTGGGAAC

Basic information

species Physcomitrella patens
transcript PP1S286_35V6.2
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|18336593|gb|BJ168615.1|BJ168615
EST:     TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAG                         GTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
genomic: TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAGgtatggaagt ... ttcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
EST: gi|162278814|gb|FC454657.1|FC454657
EST:     TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAG                         GTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
genomic: TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAGgtatggaagt ... ttcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
EST: gi|37837044|gb|BJ595052.1|BJ595052
EST:     TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAG                         GTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
genomic: TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAGgtatggaagt ... ttcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
EST: gi|37844453|gb|BJ602461.1|BJ602461
EST:     TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAG                         GTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
genomic: TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAGgtatggaagt ... ttcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
EST: gi|162278813|gb|FC454656.1|FC454656
EST:     TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAG                         GTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
genomic: TGGATATCCAAAGCACACGTATGCTTGGGCAAGTTGGGTTTCTAGCAAAGgtatggaagt ... ttcttatcagGTATTCACTACATTTGAAGAATTAGGGATCTCTGTAGATGTAGTGGCCACA
EST: gi|37852463|gb|BJ610471.1|BJ610471
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