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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgttctggttacttttgaag

Basic information

species Oryza sativa
transcript LOC_Os03g01850.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G143213_T02 (Zea mays), 5'ss of exon 6
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgttctggttacttttgaag
                 || ||||||||||| |||||||||||||| || ||||| |||||||||||||||||||| || ||| | || ||||||||||||||||||  | || |||   |||  ||| ||   |||  ||||||    |||      | |||||||    | || |  | |||| ||| ||||||
-----------------GGCTGTATCTTTGCGGAAATGGTGAACCAAAAGCCACTATTCCCTGGTGATTCTGAGATCGACGAACTGTTCAAGATATTCAGgttctatgtttgtgctggcgttagatttctta--tcttgtatttgcacattttaggtttatctgattctgtttgtat-ctatggtcactgttgaag

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G008327_T01 (Zea mays), 5'ss of exon 5
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgttctggttacttttgaag
||||| ||||||| || || ||||||||||| |||||||||||||| || ||||| |||||||| ||||||||||| || ||| | ||||||||||||||||||||| || || |||  ||||  ||| ||  |||||| ||||| || |||   | || ||||| || |||  |||||  | |  |||  |||||
TTGATGTGTGGTCTGTGGGCTGTATCTTTGCGGAAATGGTGAACCAAAAGCCACTATTCCCTGGCGATTCTGAGATCGACGAACTTTTTAAGATATTCAGgttctatgattgtgctggcattaaatttctt-attctgt-atttgcgtattttagacctgtctgactt-tgtt-tgtgtcattgccactgctgaag

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G143213_T01 (Zea mays), 5'ss of exon 5
TTGATATGTGGTCAGT-TGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgttctggttacttttgaag
 |||  | ||||| || ||| ||||||||||| |||||||||||||| || ||||| |||||||||||||||||||| || ||| | || ||||||||||||||||||  | || |||   |||  ||| ||   |||  ||||||    |||      | |||||||    | || |  | |||| ||| ||||||
-TGACGTATGGTCTGTGTGGCTGTATCTTTGCGGAAATGGTGAACCAAAAGCCACTATTCCCTGGTGATTCTGAGATCGACGAACTGTTCAAGATATTCAGgttctatgtttgtgctggcgttagatttctta--tcttgtatttgcacattttaggtttatctgattctgtttgtat-ctatggtcactgttgaag

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 5
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttc-tattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgt-tctggttacttttgaag-----
||||| | |||||||| || ||||| |||||||| ||||| ||||    ||| || |||||||| || ||||||||||||||||||||||| ||||||||||   |||     | ||||  |       |||||   |  |   |   | ||    || ||| | || ||||   | ||| ||| |  |||||| ||      
TTGATGTTTGGTCAGTGGGATGTATATTTGCAGAGATGGTAAACCGACGACCTCTATTCCCTGGGGACTCTGAGATTGATGAATTATTTAAAATATTCAGgtaaatatctatttcctgatttccataaattttgcatttcttggtaaatcttaataaaatctatcatctatg-aatatgtctctag--acttttaaatgtcat

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA09G03470.1 (Glycine max), 5'ss of exon 5
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttc-tattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgt-tctggttacttttgaag-----
||||| | |||||||| || || || |||||||| ||||| |||     ||| || |||||||| || ||||||||||||||||||||||| ||||||||||   |||     | ||||  |       |||||   |  |   |   | ||    |  | | | || ||||   | ||| ||| |  |||||| ||      
TTGATGTTTGGTCAGTGGGATGCATATTTGCAGAGATGGTAAACAGACGACCTCTATTCCCTGGGGACTCTGAGATTGATGAATTATTTAAAATATTCAGgtgaatatctatttcctgatttccatgaattttgcatttctgggtaaatcttaataatatttatcatctatg-aatatgtctctag--acttttaaatgccat

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA05G25320.1 (Glycine max), 5'ss of exon 4
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgt------tctattatcgtactgagattacctttttttgttctgt-tatttgtgttttt--gccaactctctgatttatgtggtgtgttctggttacttttgaag
||||||| |||||||| || || || |||||||| ||||| || ||   |||||| |||||||| || ||||||||||||||||| ||||| ||||||||||       || || |   |       ||   || ||||    |  ||||    | | |  ||  |     |||   |    |  ||  |   || |  |     
TTGATATTTGGTCAGTGGGATGCATATTTGCAGAGATGGTAAATCAACGACCACTTTTCCCTGGGGACTCTGAGATTGATGAATTGTTTAAAATATTCAGgtgaatagcctttttttccataatttctattgttctttgggaagcatattaaaatctgttggctgaaaacttgacaaagaatgcctgcccaaattcccct-----

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA08G08330.1 (Glycine max), 5'ss of exon 5
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttt-tgttctgttatttgtgtttttgccaactctctga----tttatgtggtgtgttctggttacttttgaag-
||||||| |||||||| || || || |||||||| ||||| || ||   ||| || |||||||| || ||||||||||||||||| ||||| ||||||||||   ||   | |  |   || |  | | || |  | ||  | |  | ||     |   |  ||||    || |    |  ||  |||   |  ||  ||  
TTGATATTTGGTCAGTGGGATGCATATTTGCAGAGATGGTAAATCAACGACCTCTTTTCCCTGGGGACTCTGAGATTGATGAATTGTTTAAAATATTCAGgtga-atagccttttttccatgatttctattgttctttgggagtcatattaaaatctcttggctgaaaacttgacaaagaatgc-ctgcccaaattcaaatt

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 6
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatttatgtggtgtgttctggttacttttgaag----
||||| ||||||| || || ||||| ||||| || ||||||||||||  |||| |||| ||||| || || |||||||||||||| || ||||| |||||||  ||     ||  |    ||   ||| ||| |   |    |||  |    |   |    |     | | |      ||   ||    |||||||    
TTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGATGGTGAACCAGCGACCATTGTTTCCTGGGGACTCGGAGATTGATGAATTGTTCAAGATCTTCAGgtgttaaccatgttgtacttttttttttctttctatagcctcttgattagaagttgaaaagccatgctctttataaattttcagtagactttgaagtttg

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S281_23V6.1 (Physcomitrella patens), 5'ss of exon 6
TTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAATGGTGAACCAGAAACCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattatcgtactgagattacctttttttgttctgttatttgtgtttttgccaactctctgatt-tatgt-ggtgtgttctggttactt--ttgaag--
| ||  | ||||| ||||| || || || || ||||||||||  || |  || ||||||||||||||||| ||||||||||| ||||| |  ||||||||||  || | | | |    |  ||  |      | |  | ||  || |  || || || |   || |  ||| |  ||||   |    ||  |   ||| |  
TAGACGTCTGGTCCGTTGGATGCATATTCGCTGAAATGGTGACTCAAAGGCCTCTGTTCCCTGGTGATTCAGAGATTGATGAGTTATTCAGAATATTCAGgta-tactctagaatcctggatat-tcacggagattcgctaactgggaattggcaaagtgcttgttaatatctcagtgtcaaccatatagctacctgatgaa

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|33803869|gb|CF327809.1|CF327809
EST:     GGTGATTCTGAGATTGATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
genomic: GGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
EST: gi|29662032|gb|CB658307.1|CB658307
EST:     CCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
genomic: CCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
EST: gi|88253212|gb|CI351838.1|CI351838
EST:     CCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAAATGAACAAAAGTTGGCCAGGAGTTAGCTCATTA
genomic: CCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCC-AAATGAAC-AAAGTTGGCCAGGAGTTAGCTCATTA
EST: gi|88978284|gb|CI384727.1|CI384727
EST:     ATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
genomic: ATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
EST: gi|86885548|gb|CI318699.1|CI318699
EST:     CCACTGTTCCCTGGTGATTCTGACATTGATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
genomic: CCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
EST: gi|88509819|gb|CI437325.1|CI437325
EST:     AGATTGATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
genomic: AGATTGATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
EST: gi|38482398|gb|CF966438.1|CF966438
EST:     CCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
genomic: CCACTGTTCCCTGGTGATTCTGAGATTGATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
EST: gi|88522726|gb|CI450366.1|CI450366
EST:     GATGAATTATTTAAGATATTCAG                         GGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC
genomic: GATGAATTATTTAAGATATTCAGgttctattat ... acttttgaagGGTACTAGGAACTCCAAATGAACAAAGTTGGCCAGGAGTTAGCTCATTACC