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'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttacttttctttcacatcaagaattttcagtactgagataatatgatattggcaatcaccttgtccaaccattttcatataatatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG

Basic information

species Oryza sativa
transcript LOC_Os06g36770.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G165418_T01 (Zea mays), 3'ss of exon 13
gtatgttacttttctttcacatcaagaattt--tcagtactgagataatatgatattggcaatcaccttgtccaaccattttc-atataatatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG
    || | || |  |   || ||   | ||  | | | |||  | | ||| | |||   | |    |    || ||||   | |  || | |  || |||||| |||||||||||||||||||| ||||| |||||| | ||||| || || ||| ||||||| || ||||||||||| || ||||||||||| |||||
----gtcatttcttatcgtcaacattgacttaattactcctgcaacagtatca-att---attttgttcacgcagccatcaccgacctattctattacagGTGGAGAAAATCAAGGCGTTGATGCTAATGGGAATTCACTCGACTTCTCAACGAAGCTGCTCCACCTCGCATGGCACCCGACCGAGAATTCTATTGCATG

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 13
gtatgttacttttctttcacatcaa---gaattttcagtactgagataatatgatattggcaatcaccttgtccaaccattttcatataatatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG
||| |||     | | |||  |       | |||| |  |   | |||   || | |||      | |  | |   | || |     |||| |   | ||| |  |||| |    | || || || ||||| ||||| ||||| ||  | ||||||||||| ||  | ||||||||||||||||||||||| || || ||
gtaagttctcaatttatcaactttgcccaagtttttatgatatatatagcttgttcttgtagtatatcaagacttgcaatatattggtaatcttgaacagGAGCAGAAAGTGCCAGTGTCGACGCAAATGGGAATTCTTTTGATTTCACAACAAAGTTGCTGCACTTAGCATGGCACCCAACTGAGAATTCAATTGCTTG

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 13
gtatgttacttttctttcacatcaagaattttcagtactgagataatatgatattggcaatcaccttgtccaaccattttcatataatatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG------
||    || ||  |      ||      |||   |   |    |  | |  |  | | |||  |   | |   | ||       || | |   | ||| |  || |     || ||||| || ||||| ||||| ||||| ||  | ||||||||||| ||  | ||||||||||||||||||||||| || || ||      
gttctctatttaacaactttatttgtgttttcatgatatagcttgttcttcttgtagtaatatcaaagacttgcaatacattggtattcttgaacaggagcagAGAGCGCCGGTGTTGACGCAAATGGGAATTCTTTTGATTTCACAACAAAGTTGCTGCACTTAGCATGGCACCCAACTGAGAATTCAATTGCTTGTGCTGC

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 13
gtatgttacttttctttcacatcaa---gaattttcagtactgagataatatgatat-tggcaatcaccttgtccaaccattttcatataatatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG
||| |||   | | |  ||  |  |   |  ||||||  |   || |  |      | | | |||  |   | |   | ||       || | |   | ||| |  || |     || ||||| || ||||| ||||| ||||| ||  | ||||||||||| ||  | ||||||||||||||||||||||| || || ||
gtaagttctctatttaacaactttatttgtgttttcatgatatagcttgttcttcttgtagtaatatcaaagacttgcaatacattggtattcttgaacagGAGCAGAGAGCGCCGGTGTTGACGCAAATGGGAATTCTTTTGATTTCACAACAAAGTTGCTGCACTTAGCATGGCACCCAACTGAGAATTCAATTGCTTG

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 13
------------------gtatgttacttttct-ttcacatcaagaattttcagtactgagata-atatgatattggcaatcaccttgtccaaccattttcatat------aatatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG
                     || |   | ||| |||| | ||  |||||| |  |  |   |  |    |||||  |   ||  |     | || |||||   |      |||  |  | ||| |  || |  | ||| |||||||| ||||||||||| ||||| ||  | ||||||||||| ||||| ||||||||||||| ||| || || ||||| ||
gtgagtcttttcttgttctcttgctttctctctattcaaaccacaaatttttaaaatcgtcttttaagcaatattttcccccatttctcatatcctttttctattctggggaatccgtgacagGAGCCGATAGCCCAGGAGTTGATGCAAATGGAAATTCTTTTGATTTCACTACAAAGTTGCTACATCTAGCATGGCACCCAAGTGAAAACTCAATCGCCTG

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 13
gtatgttacttttctttcacatcaagaattttcagtactgagataatatgatattggcaatcaccttgtccaaccattttcatata-atatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG
        ||     |||  || |||    |||  ||||       | | |  ||| |    |        |  | ||||| |    || |   |||||    ||||  |  |  |||||||| ||||||||| |||||||||| || ||||||||||||||  | || ||||||||||||||||||||  |||| ||
------gtctgcatcttcttatgaagg--cttctatacttgtcctttttaactttgccttctagtgatgtaattccttttcttggggatttttgatagGACCAGAAAGCCCTGCGGTTGATGCAAATGGAAATGCATTTGACTTGTCCACAAAGTTGCTCCACTTAGCTTGGCACCCAACTGAGAATTCCCTCGCCTG

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|58655643|gb|CK044323.1|CK044323
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|86483283|gb|CI125916.1|CI125916
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|58675521|gb|CK064208.1|CK064208
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|86887746|gb|CI311879.1|CI311879
EST:     CCCGTGGTGTNCGGAAAAG                         GTGGGGAAAAATCAAGGCGTTGAATGCCAATGGAAATTCATTTGACTTTT
genomic: CCCGTGGTGTGCGG-AGAGgtatgttact ... tatgctatagGTGGGG-AAAATCAAGGCGTTG-ATGCCAATGGAAATTCATTTGACTTTT
EST: gi|66913089|gb|CX099937.1|CX099937
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|29630757|gb|CB635766.1|CB635766
EST:     AACAAGGCCCACACGCACACTAACCTCTTTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|29627088|gb|CB632099.1|CB632099
EST:     AACAAGGCCCCCACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGG
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTC-G
EST: gi|218501369|gb|FG965487.1|FG965487
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|58658882|gb|CK047562.1|CK047562
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|88411135|gb|CI606354.1|CI606354
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|29683055|gb|CB679330.1|CB679330
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|29617518|gb|CB622530.1|CB622530
EST:     ACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: ACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|29622204|gb|CB627215.1|CB627215
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|29644040|gb|CB649047.1|CB649047
EST:     AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: AACAAGGCCCACACGCACACTAACCTCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
EST: gi|55411458|gb|CV723834.1|CV723834
EST:     TCTCTGGCCCGTGGTGTGCGGAGAG                         GTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA
genomic: TCTCTGGCCCGTGGTGTGCGGAGAGgtatgttact ... tatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatatgatattggcaatcaccttgtccaaccattttcatataatatgctatagGTGGGGAAAATCAAGGCGTTGATGCCAATGGAAATTCATTTGACTTTTCGACAAAGTTGCTCCATCTTGCATGGCACCCAACTGAGAATTCTATCGCATG
                                 attttcatataatatg  TA-rich tract