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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAGATCGGACAGGCAGTGTCACAATTGTTGGTGCTGTCTCTCCACCTGGAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaactgctagattaatccaacctttgaattaaattttcaaacctttctaactgcatgttcattgtttgataatcttaactcctctcaattgcag

Basic information

species Oryza sativa
transcript LOC_Os06g45120.2
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 14
TCCAGATCGGACAGGCAGTGTCACAATTGTTGGTGCTGTCTCTCCACCTGGAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaactgct--agattaatccaacctttgaattaaattttcaaacctttctaactgcatgttcattgtttgataatcttaactcctctcaattgcag
 || || || ||||| ||||| ||||||||||||||||| || ||||||||||| ||||| ||||| ||||| || |||||||| || || || || |||||||    | |  |  | ||      ||  |  | |      |   ||     ||   ||     |   |||  | ||   |  || |  |   ||      
CCCTGAACGTACAGGTAGTGTAACAATTGTTGGTGCTGTTTCGCCACCTGGAGGAGATTTCTCAGACCCTGTGACATCTGCAACCCTCAGCATAGTTCAGgtaaaactattctttcaaatatggttaaaatgggtaactgcctgcaaagtaagtcagcctaaggttgtcttgactaattcccgcaaattgttaaaaccct--

upper sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 14
TCCAGATCGGACAGGCAGTGTCACAATTGTTGGTGCTGTCTCTCCACCTGGAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaagg--aaactgctagattaatccaacctttgaattaaattttcaaacctttctaactgcatgttcat-tgtttgataatcttaactcctctcaattgcag
 || || || ||||| || || || |||||||||||||| || ||||||||||| ||||| ||||||||||| || |||||||| || || || || |||||||    | |||   | ||      ||  |  |||       | ||||       | |   | |||    ||    ||   |  || |  |   ||      
CCCTGAACGTACAGGTAGCGTAACTATTGTTGGTGCTGTTTCGCCACCTGGAGGAGATTTCTCAGATCCTGTGACATCTGCAACCCTGAGCATAGTTCAGgtaaaactatactttaaaatatggttaaaatgggaaactg-cctgcaaagtaagtcagccttaggttgtcatgaccaatgcccacaaattgttaaaagcct--

upper sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 13
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 14
TCCAGATCGGACAGGCAGTGTCACAATTGTTGGTGCTGTCTCTCCACCTGGAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaactgctagattaat-ccaacctttgaattaaattttcaaacctttctaactgcatgttcattgtttgataatcttaactcctctcaattgcag-------------------------------------------------------------------------------------------
 ||||| || |  || ||||| |||||||||||||| || || || |||||||| || |||||||||||||| || || ||||| ||||||||||||||||| |      |  | | || ||  |  | |    ||      ||  |   |   ||   | || |      |  ||| | |   |      | | ||  ||                                                                                           
ACCAGAACGTAACGGAAGTGTTACAATTGTTGGTGCAGTTTCGCCTCCTGGAGGAGACTTTTCAGATCCTGTGACTTCAGCAACCCTTAGTATTGTGCAGgtga-----ttatttggttcatgtctgcttccctatcttccattgtagattacatagtcgtatatgttggttgagatgaaccagatggtgtttagttttagatctgccgcagactcgtatatttaagcattttttttctccactttgaaatgcttactcttccattctggttgtttctcttttcttctgcag

upper sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 13
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 14
TCCAGATCGGACAGGCAGTGTCACAATTGTTGGTGCTGTCTCTCCACCTGGAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaactgctagattaatccaacctttga-attaaattttcaaacctttctaactgcatgttcattgtttgataa-tcttaactcctctcaattgcag---
 ||||| || |  || ||||||||||||||||| ||||| ||||| |||||||| ||||| || |||||||| || ||||||||||| || ||||| ||||||| || |    |   |  || || | | | | |||||| | |   | || |  |   | || ||  |     |  || | || | |      |||   ||   
ACCAGAACGTAACGGTAGTGTCACAATTGTTGGGGCTGTGTCTCCTCCTGGAGGAGATTTCTCTGATCCTGTGACATCTGCAACTCTCAGCATTGTCCAGgtaaagataaaattctgt--atgcatcttctaatattaaaatgt---agctattaatacgtatattggtgaagggtcaaatttttaatgtagaaaatgatagcat

upper sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 13
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 5'ss of exon 14
TCCAGATCGGACAGGCAGTGTCACAATTGTTGGTGCTGTCTCTCCACCTGGAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaagga--aactgctagattaatccaacctttga--attaaattttcaaacctttctaactgcatgttcattgtttgataatcttaactcctctcaattgcag
 ||||| || ||||| |||||||| ||||| ||||| || |||||||| || || |||||||||||||| || || || || || ||||||||||| |||||||     || |  |  |  | |   |  ||||   |||  |  |   |    |   |||     ||| |  |    | |     |  | |     | |    
GCCAGAACGCACAGGTAGTGTCACCATTGTGGGTGCAGTTTCTCCACCAGGTGGAGATTTTTCAGATCCAGTGACATCAGCTACACTTAGTATTGTCCAGgtaatctccaaattttccagcattttcatttttgcccatttcacgtctcatgagtaacaacatttagttaaaggagacacaggaaaagtttcctagcact----

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|58692820|gb|CK081507.1|CK081507
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|58611693|gb|CK039405.1|CK039405
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|33804193|gb|CF327971.1|CF327971
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|116875037|gb|EC365545.1|EC365545
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|88735905|gb|CI757480.1|CI757480
EST:     TGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: TGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|66919084|gb|CX105932.1|CX105932
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|116875538|gb|EC366046.1|EC366046
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|58657888|gb|CK046568.1|CK046568
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|29617005|gb|CB622017.1|CB622017
EST:     GAGGGGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAACAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
EST: gi|27578142|gb|CB000837.1|CB000837
EST:     GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAG                         GTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT
genomic: GAGGTGATTTTTCAGATCCTGTTACCTCTGCAACTCTTAGTATTGTGCAGgtaaggaaac ... tcaattgcagGTCTTTTGGGGATTGGATAAGAAGCTGGCTCAAAGAAAGCATTTCCCATCT