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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaacattatacatttcttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG

Basic information

species Oryza sativa
transcript LOC_Os02g32570.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G057504_T01 (Zea mays), 3'ss of exon 7
aaaacattatacatttcttgt-gctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgta-atcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
| |  | ||||   | ||  | |||    |  | | |||    ||  |  | |||||    |   |      | || || || ||    |||||| |   |||| |||||||||||||||||||| |||||||||||| ||||||| |||||||||||||||||||| |||| |||||| |||| |||||||||||| |||
acagtaatatagtgtactgttagcttcttttttatgctagccattatc--ttttagctgccttccacttgtttgtgagtgtcttatgagatgtttgccgaagGACCCTTGGTGGAATCCTGCTGTGGAAGAACAAGCTGTCATGCGCATCCATCGAATTGGTCAAACGAAGACTGTTTCTATCAGAAGATTCATCGTGAAG

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 19
aaaacattatacatttcttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttcctt---cagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
  ||    ||   | | | |||  ||| |    || |  |  ||||    ||     | || |||| |    | |  ||| |      | |  | ||   ||||| || |||||||||||||||||||| ||||||||| | ||||| || ||||| ||||| ||||||||||  ||| |||| | | | || || || |||
ccaatccaatgggtatatagtgacatatta--ttattg-tcatttgtaaagtatttgtttttttagtaattatggattattgatgatttttcactttggacagGACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAG

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA17G05390.1 (Glycine max), 3'ss of exon 18
aaaacattatacatttcttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcat--gtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
   | |  ||  || | | |||  ||  ||| ||| |  |  ||||    ||     | || |    || ||   |   |  ||||  |    ||    ||||| || |||||||||||||||||||| ||||||||| | ||||| || ||||| ||||| ||||||||||  ||| |||| | | | || || || |||
tgtataaaatggatatatagtgacattatga-ctattg-tcatttggaaagtatttgttttttagtaattatggattattgataatttttcactttggacagGACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAG

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
lower sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 18
aaaacattatacatttc----ttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
  |  |||     | ||    || || |    || || |    ||| |||    || |     |  ||   |  | ||   | || |   ||| ||   |  ||||||| ||||||||||| ||||| || ||||||||| | |||||||| ||||| ||||| |||||||| || ||    |||||  | ||||| || |||
-tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagtaactgagtgtttgataataatt---tctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
lower sequence: PP1S41_174V6.1 (Physcomitrella patens), 3'ss of exon 18
----------------------------------------aaaacattatacatttcttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
                                         ||     || |  ||     | || | |    | |    || |   | | ||    ||   |||  |   ||  |   || |  ||        || ||||||| |||||||| || ||||| ||||| || || || |||||||| ||||| ||||||||||| ||   |||     | ||  | || || || |||
gtgagtccttaatgcacttatatctgttcgtgcttattcgtaattgacattctattaagtgggtacaatagaatccaggcttatcaactttttgttgtacaattattagtgttaattagtctttgtcgatgaggatttagGATCCATGGTGGAACCCGGCTGTCGAAGAGCAGGCAATTATGCGGATACATCGCATTGGTCAAACCAAAGATGTCCAAGTTAAGCGGTTTATTGTAAAG

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
lower sequence: EFJ24758 (Selaginella moellendorffii), 3'ss of exon 6
aaaacattatacatttcttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
                                               ||   |||  |  | ||  |||| |  |  |    | |   |    | | ||||||||||||||||||||||| || ||||||||||| || ||| | ||||| || || || || ||  | |  || || |||||  ||||||||||||| 
--------------------------------------------gttcgctatagtttcgttttgccatcgtcagaat----tgacactccgccttccagGATCCTTGGTGGAATCCTGCCGTGGAAGAACAAGCCATAATGAGAATCCACCGTATCGGCCAGACTCAAAACGTATCGATCAAGCGATTCATCGTCAAA

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
lower sequence: EFJ15495 (Selaginella moellendorffii), 3'ss of exon 7
aaaacattatacatttcttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
                                               ||   |||  |  | ||  |||| |  |  |       | |   | | | ||||||||||||||||||||||| || ||||||||||| || ||| | ||||| || || || || ||  | |  || || || ||  ||||||||||||| 
--------------------------------------------gttcgctatagtttcgttttgccatcgtcagaat-------tgacactccttccagGATCCTTGGTGGAATCCTGCCGTGGAAGAACAAGCCATAATGAGAATCCACCGTATCGGCCAGACTCAAAACGTATCGATTAAGCGATTCATCGTCAAA

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|88197570|gb|CI197420.1|CI197420
EST:     CTGGTGGTGTTGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATG                         GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
genomic: CTGGTGGTGTTGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATGgtatgttacc ... tttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
EST: gi|89178965|gb|CI043470.1|CI043470
EST:     TGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATG                         GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
genomic: TGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATGgtatgttacc ... tttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
EST: gi|88837636|gb|CI078996.1|CI078996
EST:     GCATCTAATGCATTTGTCATG                         GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
genomic: GCATCTAATGCATTTGTCATGgtatgttacc ... tttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
EST: gi|86479033|gb|CI121666.1|CI121666
EST:     CTGGTGGTGTTGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATG                         GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
genomic: CTGGTGGTGTTGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATGgtatgttacc ... tttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
EST: gi|89180507|gb|CI044786.1|CI044786
EST:     GGTGTTGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATG                         GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT
genomic: GGTGTTGGAATAAACCTAACTGCTGCATCTAATGCATTTGTCATGgtatgttacc ... tttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
                                           tgtttccttc  CT-rich tract
           atattctta  TA-rich tract