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

...taatacatagtagctccgtcatattagcattggtcgcaggttattcggtaacttggtgaccgcagtatgaaggtgatattttggtatgtttctcctgcagTGTGCCACTTTTGTAGGCACGGTGACGTACATGTCTCCTGAAAGGATCAACAACGAGTGTTATTCATATCCAGCGGACATATGGAGTCTTGGACTAGCAT

Basic information

species Physcomitrella patens
transcript PP1S92_27V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S92_27V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ31855 (Selaginella moellendorffii), 3'ss of exon 4
taatacatagtagctccgtcatattagcattggtcgcaggttattcggtaacttggtgaccgcagtatgaaggtgatattttggtatgtttctcctgcagTGTGCCACTTTTGTAGGCACGGTGACGTACATGTCTCCTGAAAGGATCAACAACGAGTGTTATTCATATCCAGCGGACATATGGAGTCTTGGACTAGCAT
                                   | | |   ||||  | ||| ||||||  ||    |   || |   ||   |  || ||   |||||||||||| ||||| ||||||||||| ||||||||||| || || |||||||||||||| || || || || ||||| || |||||||| ||||| || |
-----------------------------------gtatgc-gttcg-catcttagtgacca-agctcaagcctgcttaattttcactttgcttg-gcagTGTGCCACGTTTGTCGGCACGGTGACTTACATGTCTCCAGAGAGAATCAACAACGAGTGCTACTCGTACCCGGCGGATATCTGGAGTCTGGGACTTGCGT

upper sequence: PP1S92_27V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ38005 (Selaginella moellendorffii), 3'ss of exon 4
taatacatagtagctccgtcatattagcattggtcgcaggttattcggtaacttggtgaccgcagtatgaaggtgatattttggtatgtttctcctgcagTGTGCCACTTTTGTAGGCACGGTGACGTACATGTCTCCTGAAAGGATCAACAACGAGTGTTATTCATATCCAGCGGACATATGGAGTCTTGGACTAGCAT
                                   | | |   ||||  | ||| ||||||  ||    |   || |   || | |  || ||   |||||||||||| ||||| ||||||||||| ||||||||||| || || |||||||||||||| || || || || ||||| || |||||||| ||||| || |
-----------------------------------gtatgc-gttcg-catcttagtgacca-agctcaagcctgcttaatttgcactttgcttg-gcagTGTGCCACGTTTGTCGGCACGGTGACTTACATGTCTCCAGAGAGAATCAACAACGAGTGCTACTCGTACCCGGCGGATATCTGGAGTCTGGGACTTGCGT
















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|100392695|gb|BY971838.1|BY971838
EST:     AGATTACAGATTTTGGAATCAGCTCGGGCCTCGACAATTCTATTGCAATG                         TGTGCCACTTTTGTAGGCACGGTGACGTACATGTCTCCTGAAAGGATCAAC
genomic: AGATTACAGATTTTGGAATCAGCTCGGGCCTCGACAATTCTATTGCAATGgtaaatattt ... tctcctgcagTGTGCCACTTTTGTAGGCACGGTGACGTACATGTCTCCTGAAAGGATCAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggtaacttggtgaccgcagtatgaaggtgatattttggtatgtttctcctgcagTGTGCCACTTTTGTAGGCACGGTGACGTACATGTCTCCTGAAAGGATCAACAACGAGTGTTATTCATATCCAGCGGACATATGGAGTCTTGGACTAGCAT
 cggtaac  putative branch site (score: 3)
                                         tgtttctcct  putative PPT
                            tgatatttt  TA-rich tract