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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCAACTATGATTGGCACAGAAGATCGGATTTTGAATAGATGGGCACAGTTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaactttcctgttggctgctgttgtaatgccttgacttaaaatttagtctagaacattaattgatcagagaatacgggcctcatcatttgccct...

Basic information

species Oryza sativa
transcript LOC_Os02g57180.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57180.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G143651_T01 (Zea mays), 5'ss of exon 8
CTGCAACTATGATTGGCACAGAAGATCGGATTTTGAATAGATGGGCACAGTTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaactttcctgttggctgctgttgtaatgccttgacttaaaatttagtctagaacattaattgatcagagaatacgggcctca----tcatttgccct-------------------------------
|||| || |||||||||||||||||||| ||  |||| ||||||||||| ||||| || ||||||||||||||||| ||||||| |  ||| ||||| |||||| |    || ||||||| |   | |  | |||||| ||| | ||| | |||  ||  ||| || ||| |      |       | |    |  ||||||                                 
CTGCTACCATGATTGGCACAGAAGATCGAATCCTGAACAGATGGGCACAATTTGCAAAGAATTGGGGTTTCCTCCCGCTTGTTGGTGGTGGATCTACTAAgtaagt---tttgcctgttgac---tctcctgatgcct-gacctgaaaatgagttcagggcatgaaatgacctccttttgttcatgttagaagttctttgccagcagttaaattacgtaatgttcccttttgcag

upper sequence: LOC_Os02g57180.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA13G18950.1 (Glycine max), 5'ss of exon 8
CTGCAACTATGATTGGCACAGAAGATCGGATTTTGAATAGATGGGCACAGTTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaactttcctgttggctgctgttgtaatgccttgacttaaaatttagtctagaacattaattgatca-gagaatacgggcctcatcatttgccct--------------------------------------------
||||    |||||||| ||||| |||||||||||||||  |||||| || ||||| ||||| |  || || || ||  |  |||    ||||   ||||||||  |  |  |   | | |||   |  | | |        |||    |||  | |   ||   | |  ||   |    ||| ||      | | |  |                                              
CTGCTGTAATGATTGGTACAGAGGATCGGATTTTGAATCCATGGGCTCATTTTGCTAAAAAGTATGGCTTTCTTCCGTTGTTTGGAGATGGGAGCACAAAgtatgtataaatctat-taggcaattactatgaacttcaatctttttttttctttttttaccaaagtgaattgtgttgttactggttctgacttctttcagctttgaaattcattttttttatctgacaaatgcaattattgcag
















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|11442907|gb|BF430806.1|BF430806
EST:     TTTGCTAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAA                         GATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
genomic: TTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaac ... gtttttgcagGATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
EST: gi|58690755|gb|CK079442.1|CK079442
EST:     TTTGCTAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAA                         GATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
genomic: TTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaac ... gtttttgcagGATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
EST: gi|29673109|gb|CB669384.1|CB669384
EST:     TTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAA                         GATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
genomic: TTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaac ... gtttttgcagGATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
EST: gi|29671359|gb|CB667634.1|CB667634
EST:     TTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAA                         GATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
genomic: TTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaac ... gtttttgcagGATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
EST: gi|8856604|gb|AU093922.1|AU093922
EST:     TTGGGGTTTCCNCCCCNCTTGTTGA-TCTGGGTCTAC-AA                         GATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
genomic: TTGGGGTTTCC-TCCCTCTTGTTGATTCTGGGTCTACAAAgtaattgaac ... gtttttgcagGATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
EST: gi|88730417|gb|CI754030.1|CI754030
EST:     TTGATTCTGGGTCTACAAA                         GATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT
genomic: TTGATTCTGGGTCTACAAAgtaattgaac ... gtttttgcagGATTCAGCCTGTTTATGTTGTGGATGTTGCTGCTGCTATTGTCAACTCCCT