Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgggaatggtgcgttatttgtccatggtgaaactttttataaacctgttgtgtactctttgtcttggcttttgttaattggcgttgttcgacgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGCTATGTTATTTTACCGAAGGACTTCGAAAAAGGCTATAGGTCAAATGTTA

Basic information

species Physcomitrella patens
transcript PP1S36_183V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S36_183V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 5
tgggaatggtgcgttatttgtccatggtgaa-actttttataaacctgttgtgtactctttgtcttggcttttgttaattggcgttgttcgacgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGCTATGTTATTTTACCGAAGGACTTCGAAAAAGGCTATAGGTCAAATGTTA
|        |||     || | |    | || ||| |    |    | ||   |   | ||||  ||   |    |   | | | |||||    | | |||||  | || || |||||||| ||||| |||||||| || || |||||||| ||||||||  | || ||||||||||| || || ||  |  | ||||| |
tttactctctgctcagcttttgctcaataaatactgtaagcatttatattcgctttcccttgtgctgttctgaaattcattgtgatgttctgttttt-cagATTGCTGCTATCTGTCAAGAAGCTGGTATGCATGCTGTGCGCAAAAATCGGTATGTTATCCTCCCCAAGGACTTCGAGAAGGGTTACCGAACCAATGTCA
















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|162265816|gb|FC442403.1|FC442403
EST:     TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAG                         ATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
genomic: TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAGgtgagaatct ... acgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
EST: gi|67696448|gb|BJ956681.1|BJ956681
EST:     TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAG                         ATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
genomic: TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAGgtgagaatct ... acgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
EST: gi|67727787|gb|BJ978046.1|BJ978046
EST:     TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAG                         ATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
genomic: TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAGgtgagaatct ... acgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
EST: gi|162199281|gb|FC375117.1|FC375117
EST:     TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAG                         ATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
genomic: TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAGgtgagaatct ... acgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
EST: gi|162199282|gb|FC375118.1|FC375118
EST:     TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAG                         ATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
genomic: TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAGgtgagaatct ... acgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
EST: gi|162265817|gb|FC442404.1|FC442404
EST:     TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAG                         ATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
genomic: TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAGgtgagaatct ... acgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
EST: gi|15728529|gb|BI740834.1|BI740834
EST:     TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAG                         ATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC
genomic: TTGACCTGGAAGACTACGTCTCTAGACCCGATAAGATAAGTGCAGCTGAGgtgagaatct ... acgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgtgtactctttgtcttggcttttgttaattggcgttgttcgacgtgtgcagATCTCCGCAATTTGTCAAGAGGCTGGCATGCATGCCGTACGAAAAAATCGCTATGTTATTTTACCGAAGGACTTCGAAAAAGGCTATAGGTCAAATGTTA
                          tgttaat  putative branch site (score: 3)
                       ttttgttaatt  TA-rich tract