Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctcatttcgaaacaaaaattccagttcgacattatttatttatttcttctccgacctttgtatttgcag

Basic information

species Physcomitrella patens
transcript PP1S256_73V6.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S256_73V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: LOC_Os02g45600.1 (Oryza sativa), 5'ss of exon 4
TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctcatttcgaaacaaaaattccagttcgacattatttatttatttcttctccgacctttgtatttgcag
||||||  ||||||||||||| ||||| ||  || | ||||  | ||| ||||||||||||| ||||||||| ||||| ||||| || |||||||| |||||     ||||| ||   ||  |  | |       ||| ||||       |||| |  ||     |  | |   | || ||   | |||| |   ||   ||                                           
TTGGGCCATCAATCTGATGGCAGATGTTGTGGAACATGAAAACTACAATAAGATGAACGCTCGCAACATTGCTATGGTTTTTGCACCAAACATGACTCAGgt----tattctcaaaatctatttggctttatttattttttct---tgctatctacagaatttgctatttcacagactaatcatgtaacataccatctcttttatag--------------------------------------

upper sequence: PP1S256_73V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctca--tttcgaaacaaaaattccag--ttcgacattatttatttatttcttctccgacctttgtatttgcag
||||||  | ||  | ||||| ||||| | ||||  |||||  || ||||||||||| || | ||| ||||||||||| |||||||| |||||||| || ||| |      | || |  |               | |||| | ||  || | | |     |   | |  ||| ||| ||  ||| |  |   || |   |    || || | || |  ||                            
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagag----taaatcattt--------------tctattgtaaatgtagtatac-----agttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg--------------------------

upper sequence: PP1S256_73V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: AT3G11490.1 (Arabidopsis thaliana), 5'ss of exon 4
TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctcatttcgaaacaaaaattccagttcgacattatttatttatttcttctccgacctttgtatttgcag
||||||| ||||||| ||||||||||| ||| |   ||||    | ||||||||||| ||||  |||||||||||||| ||||| ||||||||||| |||||| ||  || ||||    ||   | |   ||   |||  | ||  | || | ||   ||  | |||       | |  ||| |                                                             
TTGGGCTATCAATCTAATGGCTGATGTTGTTGAGATGGAACAACTTAACAAGATGAATGCTCGAAACATTGCAATGGTTTTTGCACCTAACATGACTCAGgtaagtt-ttttgaatgaatctctaaagattg---tttgatgtgttcgtattttggtaaatgacatca------gtcaaattgcag-----------------------------------------------------------

upper sequence: PP1S256_73V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: Vv15s0048g02830.t01 (Vitis vinifera), 5'ss of exon 5
TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctcatttcgaaacaaaaattccagttcgacattatttatttatttcttctccgacctttgtatttgcag
 ||| |  ||||| ||||| | |||||||| ||  | |||     |||||||||||| || | ||||||||||||||| ||||| ||||||||||| |||||      | || |||   || |    ||  |   ||| || | |      |||||    | | || |    ||    || || | | | ||  | | ||    || |   | | ||                            
CTGGACCATCAATTTGATGACAGATGTAGTGCAGCATGAACATCACAACAAGATGAATGCACGCAACATTGCAATGGTTTTTGCACCTAACATGACTCAGgt------tgcttaacatatcttgttctgtcg--ttttgttttaag---gttctgct---acatatggggtatc--tacagttggtatccaatgtgctagcctcac-tagctgactt----------------------------

upper sequence: PP1S256_73V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: EFJ22564 (Selaginella moellendorffii), 5'ss of exon 4
TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctcatttcgaaacaaaaattccagttcgacattatttatttatttcttctccgacctttgtatttgcag
 |||||  | ||||| ||||| || || |  || |||||  |||  |||||||||||| | |  ||||| |||||||| |||||||| |||||||| |||||||||   |||       || |  | |||| || |||  | |        |||   |   ||  |  | | |       |  |                                                             
CTGGGCGCTGAATCTCATGGCCGACGTCGCCCAGGAGGAGGCGTCAAACAAGATGAACTCCCGGAACATCGCAATGGTTTTTGCTCCCAACATGACTCAGgtacgttcctct------ttcatttggtgcttggtttttgttt--------tcttttctgtaatgtatttccttttgctgtcccag-----------------------------------------------------------

upper sequence: PP1S256_73V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: EFJ12967 (Selaginella moellendorffii), 5'ss of exon 4
TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctcatttcgaaacaaaaattccagttcgacattatttatttatttcttctccgacctttgtatttgcag
 |||||  | ||||| ||||| || || |  || |||||  |||  |||||||||||| | |  ||||| |||||||| |||||||| |||||||| |||||||||   |||          |  | |  |||  ||| || ||       | | |   ||   ||   | || ||    |  |                                                             
CTGGGCGCTGAATCTCATGGCCGACGTCGCCCAGGAGGAGGCGTCAAACAAGATGAACTCCCGGAACATCGCAATGGTTTTTGCTCCCAACATGACTCAGgtacgttcctct-----ttcatttggttcttggtttttgttttg-------ttttctgtaatgtatttccttttgct--gtcccag-----------------------------------------------------------

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|162255569|gb|FC431359.1|FC431359
EST:     AGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAG                         ATGGCCGACCCTTTGACTGCTCTAATGCACGCAGTTCAGGTGATGAACTTC
genomic: AGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcatt ... gtatttgcagATGGCCGACCCTTTGACTGCTCTAATGCACGCAGTTCAGGTGATGAACTTC