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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttaacattcgttacacttgagtacttgacattccatagacagtaagccggtggtttgcttctggtgctttcaagtttgaacctttgactaacttctcaaaggctttgtgctatacccgcattctagGGAGGAGCTGCGGAAGTGGTTTCTCTCCATGGAGACTACGCTTTTTCGCTATCGCTTTCGGCTCGAGAGTCCTGAATCACAG

Basic information

species Oryza sativa
transcript LOC_Os07g22400.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G044317_T04 (Zea mays), 3'ss of exon 3
gtaagcttaacattcgttacacttgagtacttgacattccatagacagtaagccggtggtttgcttctggtgctttcaagtttgaacctttgactaacttctca-aaggctttgtgctatacccgcattctagGGAGGAGCTGCGGAAGTGGTTTCTCTCCATGGAGACTACGCTTTTTCGCTATCGCTTTCGGCTCGAGAGTCCTGAATCACAG
||||| |||| |||| | |   ||   | |   ||||    |||  |      |||| |||  ||| |||| ||||              |||| ||||   || || ||| | |   ||||   ||  | ||||| ||  ||||||||||||||||||||||||||||||| |||||||| |||||||||||||| |||||||||||| |||||
gtaagattaatattcat-atgtttatattcgctacatatattagcta------cggttgttcacttgtggttcttt--------------tgaccaactcaccagaaagctgtatttgatacg-acacac-agGGAAGAATTGCGGAAGTGGTTTCTCTCCATGGAGACTACACTTTTTCGGTATCGCTTTCGGCTTGAGAGTCCTGAAACACAG

upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G130351_T01 (Zea mays), 3'ss of exon 3
gtaagcttaacattcgttacacttgagtacttgacattccatagacagtaagccggtggtttgcttctggtgctttcaagtttgaacctttgactaacttc-tcaaaggctttgtgctatacccgcattctagGGAGGAGCTGCGGAAGTGGTTTCTCTCCATGGAGACTACGCTTTTTCGCTATCGCTTTCGGCTCGAGAGTCCTGAATCACAG
|||||||||| |||||  ||  ||   |  |  ||||    | |  |       |||||||  ||| |||| ||||              |||| ||||   |  || ||| | |  |||||   ||  | ||||| ||  ||||||||||||||||||||||||||||||| |||||||| |||||||||||||| ||||  ||||||||||||
gtaagcttaatattcga-acgtttatattgtctacatatattggcta------tggtggttcacttgtggttcttt--------------tgaccaactcaatggaaagctgtattttataca-acacac-agGGAAGAATTGCGGAAGTGGTTTCTCTCCATGGAGACTACACTTTTTCGGTATCGCTTTCGGCTTGAGAACCCTGAATCACAG
















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|58665435|gb|CK054121.1|CK054121
EST:     AACAAGGACATAATATCTCACTTTGTTCTCCGTCTTGTCTACTGCAGAAC                         GGAGGAGCTGCGGAAGTGGTTTCTCTCCATGGAGACTACGCTTTTTCGCTA
genomic: AACAAGGACATAATATCTCACTTTGTTCTCCGTCTTGTCTACTGCAGAACgtaagcttaa ... cgcattctagGGAGGAGCTGCGGAAGTGGTTTCTCTCCATGGAGACTACGCTTTTTCGCTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttgaacctttgactaacttctcaaaggctttgtgctatacccgcattctagGGAGGAGCTGCGGAAGTGGTTTCTCTCCATGGAGACTACGCTTTTTCGCTATCGCTTTCGGCTCGAGAGTCCTGAATCACAG
              gactaac  putative branch site (score: 1)