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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGAGGAGCAAAGCCTGTTGTCAATCAGGGGGGTAGTGGGATAATTACTGCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttgaacctcacatggcttttaaccctattatattctggttttgatttttacaaaaatatcttgaatag

Basic information

species Oryza sativa
transcript LOC_Os01g05800.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g05800.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G110063_T01 (Zea mays), 5'ss of exon 10
------TGGGAGGAGCAAAGCCTGTTGTCAATCAGGGGGGTAGTGGGATAATTACTGCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttgaacctcacatgg----ctt----ttaaccctattatattctggttttgatttttacaaa-aatatcttgaatag
      |||||||||| |||||||| || | | |||||| |||  |||||||||| |||||||||||||||||  | | ||||||||||||      ||| ||||||||| ||||||| |||  | |    |||    |||| ||| || | |||||| | | ||| | ||| | ||| ||   || ||
GGAAAATGGGAGGAGCCAAGCCTGTAGTGAGTGAGGGGGATAGGAGGATAATTACAGCAGGACGAGCAAAACGCTCTAATGCTCAACCAGC------TGGAGAAAGgtgcctttgaacttcattttgaatgcttaaacttaaacctcttctgttctggatataattctcacacacaatctcacaaacag

upper sequence: LOC_Os01g05800.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM5G839422_T01 (Zea mays), 5'ss of exon 9
------TGGGAGGAGCAAAGCCTGTTGTCAATCAGGGGGGTAGTGGGATAATTACTGCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttgaacctcacatggct-tttaaccctattatattctggttttgatttttacaaa-aatatcttgaatag
      |||||||||| |||||||| || | | |||| |||||||| |||||||| |||||||||||||||||  | | ||||||||| |||      || || |||||| ||||||| |||  | | |  |||| ||| || | |  ||| | | ||||| ||| | ||| ||   |  ||
GGAAAATGGGAGGAGCGAAGCCTGTAGTGACTGAGGGAGGTAGTGGAATAATTACCGCAGGACGAGCAAAACGCTCTAATGCTCAACCTGCC------GGAGAGAGgtgcctttgaacttcattttgatgcttaaacctcttctgtcttggctataattttcacagacaatctcgcaagcag
















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|4714906|gb|AU056023.1|AU056023
EST:     GTACGAGTGCTCAACCAGCCCAACCTGGTGAAAG                         ATTTAAACAGCTGAAAGNAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
genomic: GTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttga ... tcttgaatagATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
EST: gi|29615536|gb|CB620548.1|CB620548
EST:     GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCCACCTGGTGAAAG                         ATTTAAGCAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
genomic: GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttga ... tcttgaatagATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
EST: gi|66920591|gb|CX107439.1|CX107439
EST:     GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAG                         ATTTAAGCAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
genomic: GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttga ... tcttgaatagATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
EST: gi|14713818|gb|AU197781.1|AU197781
EST:     GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAG                         ATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
genomic: GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttga ... tcttgaatagATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
EST: gi|84117524|gb|CD151291.1|CD151291
EST:     GTACGAGTGCTCAACCAGCCCAACCTGGTGAAAG                         ATTTAAGCAGCTGAAAGAAGAGGAGAGCGAGAGAAAAGGCAACAAAGCGCT
genomic: GTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttga ... tcttgaatagATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
EST: gi|29620328|gb|CB625340.1|CB625340
EST:     GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAG                         ATTTAAGCAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
genomic: GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttga ... tcttgaatagATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGGCAACAAAGCGCT
EST: gi|38482468|gb|CF966504.1|CF966504
EST:     GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAG                         ATTTAAGCAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGG
genomic: GCAGGACGAGCAAAACGTACGAGTGCTCAACCAGCCCAACCTGGTGAAAGgtgcttttga ... tcttgaatagATTTAAACAGCTGAAAGAAGAGGAGAGCAAGAGAAAAGG