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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCGGTTTGAAATCAAGGATATCCTTGAAATGGAAATGAAGCTCCTGGAGGCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattctttttccactatcatgcgatgaaacaacattatctttcaccggaattaccgaagcccttatatatactttaaatgaacatcagagctgcaatggtattaacagatgctttgattttag

Basic information

species Oryza sativa
transcript LOC_Os09g32680.4
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g32680.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G408242_T03 (Zea mays), 5'ss of exon 6
ACCGGTTTGAAATCAAGGATATCCTTGAAATGGAAATGAAGCTCCTGGAGGCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattctttttccactatcatg--cgatg-------aaacaacattatctttcaccggaattaccgaagcccttatatatactttaaatgaacatcagagctgcaatggtattaacagatgctttgattttag
| ||||||||||| |||||||| |||||||||||||||||||||||||| || || ||||||||||| ||||||| ||| |||||||||||||| ||||||||||| ||  |||||  | | ||    | ||           ||||||| ||||| |    ||  ||  |||  | || |||   ||        | | || || |||     || | |||||   |   |  ||
ATCGGTTTGAAATTAAGGATATTCTTGAAATGGAAATGAAGCTCCTGGAAGCTCTCGACTATTATTTGGTTGTTTTCCATCCATATCGTCCTCTCTTACAgtaagaatccgtttcctgtgtaatcgctggtgttttttcgtggaacattacctttctc--atatctccacagctttcatttatttgttc------tagcggaactccaa----gttgatagatgtcctatctgcag

upper sequence: LOC_Os09g32680.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA08G46170.2 (Glycine max), 5'ss of exon 7
ACCGGTTTGAAATCAAGGATATCCTTGAAATGGAAATGAAGCTCCTGGAGGCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaag-attctttttccactatcatgcgatgaaacaacattatctttcaccggaattaccgaagcccttatatatactttaaatgaacatcagagctgcaatggtattaacagatgctttgattttag
|  | | |||||||||||| || |||||||||||||||||| |  | || || ||| | |||||  | ||||| ||||| ||||| ||| | || |  | |||||  ||   |    | | |  |   |     ||   |  |    |||  || |   | ||      | | | | ||| | |       |    |   |                           
ATAGATATGAAATCAAGGACATACTTGAAATGGAAATGAAGATTTTAGAAGCTCTTAATTATTACCTGGTTGTATACCATCCATACCGTTCACTATCTCCgtaagtgtttaataaagattgttttctcactgttcaggtt--ttgcacacaagagtgttcaaattatgaaaaaacaattttatttgttcatacttttctgag--------------------------

upper sequence: LOC_Os09g32680.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA18G33140.1 (Glycine max), 5'ss of exon 6
ACCGGTTTGAAATCAAGGATATCCTTGAAATGGAAATGAAGCTCCTGGAGGCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattctttttccactatcatgcgatgaaacaacattatcttt-caccggaattaccgaagcccttatatatactttaaatgaacatcagagctgcaatggtattaacagatgctttgattttag
|  | | |||||||||||| || |||||||||||||||||| |  | || || ||| | |||||  | ||||| ||||| ||||| ||| | || |  | |||||  | |||    |  ||     | | |     || | | |   |||  || |   | ||      | | | | ||| | |     |     ||    |||                        
ATAGATATGAAATCAAGGACATACTTGAAATGGAAATGAAGATTTTAGAAGCGCTTAATTATTACCTGGTTGTATACCATCCATACCGTTCACTATCTCCgtaag--tgtttaataaagattggttgttcactgttcagtttttgcacacaagagtgttcaaattataaaaaaacaattttatt---tgttcatacttttctggg-----------------------

upper sequence: LOC_Os09g32680.4 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv00s0360g00050.t01 (Vitis vinifera), 5'ss of exon 6
ACCGGTTTGAAATCAAGGATATCCTTGAAATGGAAATGAAGCTCCTGGAGGCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattctttttccactatcatgcgatgaaaca-acat-tatctttcaccggaattaccgaagcccttatatatactttaaatgaacatcagagctgcaatggtattaacagatgctttgattttag
|  ||| ||| |||||||| || |||||||||||||||||| || | || || ||  |||||||||||||||| | ||| || || ||| |  | |  |||||||    |||      ||||||    |  |    | || ||| |||  |  | ||| |      ||||| || | | ||   | | || |    ||  | || | |                     
ATAGGTATGAGATCAAGGACATACTTGAAATGGAAATGAAGATCTTAGAAGCTCTCAACTATTATTTAGTTGTATTCCATCCTTACCGTGCATTGTCTCAgtaagtacatttcatgtttatcatctattttactgtatatgtatgtttatcttgcattcc----atcctta-atgtgcattgtctcagcaac----ctctattgctttc--------------------

upper sequence: LOC_Os09g32680.4 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ10868 (Selaginella moellendorffii), 5'ss of exon 6
ACCGGTTTGAAATCAAGGATATCCTTGAAATGGAAATGAAGCTCCTGGAGGCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattctttttccactatcatgcgatgaaacaacattatctttcaccggaattaccgaagcccttatatatactttaaatgaacatcagagctgcaatggtattaacagatgctttgattttag
  || |  || ||||| || ||||| |||||||||||||||||||||||||| || || || || |||||| | || || || ||  | || ||| | |||||||  |   |||  |         ||     | | ||  ||| |   | | || |  ||          |||||||| |                                              
TTCGCTACGACATCAAAGACATCCTGGAAATGGAAATGAAGCTCCTGGAGGCGCTAGATTACTACTTAGTTATCTATCATCCTTACAGGCCGCTTGTCCAgtaagtcttgcttttta---------gagcttcctagatcttctgt--tctggatgattga---------ttatactttcag---------------------------------------------

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|24468776|gb|CA305725.1|CA305725
EST:     GCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACA                         GTTATTGCAGGATGCTGGCATAACAGATCTGACACAATTTGCCTG
genomic: GCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattct ... ttgattttagGTTATTGCAGGATGCTGGCATAACAGATCTGACACAATTTGCCTG
EST: gi|86493556|gb|CI136189.1|CI136189
EST:     GCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACA                         GTTATTGCAGGATGCTGGCATAACAGATCTGACACAATTTGCCTG
genomic: GCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattct ... ttgattttagGTTATTGCAGGATGCTGGCATAACAGATCTGACACAATTTGCCTG
EST: gi|29660228|gb|CB656503.1|CB656503
EST:     GCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACA                         GTTATTGCAGGATGCTGGCATAACAGATCTGACACAATTTGCCTG
genomic: GCACTTGACTATTATTTAGTTGTTTACCACCCATATCGTCCTCTTTTACAgtaagattct ... ttgattttagGTTATTGCAGGATGCTGGCATAACAGATCTGACACAATTTGCCTG