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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaatctgttgaggtgtgataattagtacttggattatttgtttgctgagagtcctaactctgtttcaattatacatag

Basic information

species Oryza sativa
transcript LOC_Os07g07560.2
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G164265_T02 (Zea mays), 5'ss of exon 13
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaatctgttgaggtgtgataattagtacttggattatttgttt-gctgagagtcctaactctgtttc-aattatacatag
||||||||| || || ||||| |||||||| ||||| ||||| || ||||||||||||  |||||||||| | |||||||||||||||||||| || |||||| |||    |  ||  || |   | |     | | |  || |||| ||| ||    |  |||||||||||||| ||||||| | ||
TTGTGTGGCTTCCTCGGCAAACCTTTGGGCACTCATCATGGACGCTGGAACTGGTTTCTGTTCTCAAGTTTACGAGCTCTCACCAGTTTTTCTCCACAAGgtacagttatctgagtcaagcttgaaca-----tgccta-ataatttatttagccagaaagcctaactctgtttctaattataaacag

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 13
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaat-ctgt-----tgaggtgtgataattagtacttgg--attatttgttt--gctgagagtcctaactctgtttc-aattatacatag
  | ||||| || || ||||| |||||||| ||||| ||||| |||||||||||||||  |||||| ||| ||||||||||||||||||| || || |||||| ||||  || || |     ||| |  |||  |  | ||| |    |||| ||| ||  ||   ||  | ||||||||||||  |||||||| ||
CAGCGTGGCTTCCTCGGCAAACCTTTGGGCACTCATCATGGACGCAGGAACTGGTTTCTGTTCTCAGGTTTATGAGCTCTCACCAGTTTTCCTCCACAAGgtacagtattatactatccgagtgaagcctgacgacca-tacctaataattaattgatttagccaggaagcgtaactctgtttctgattatacacag

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G082099_T01 (Zea mays), 5'ss of exon 7
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaat-ctgt-----tgaggtgtgataattagtacttgg--attatttgttt--gctgagagtcctaactctgtttc-aattatacatag
  |  |||| || || ||||| |||||||| ||||| ||||| |||||||||||||||  |||||| ||| ||||||||| || |||||| || || |||||| | ||  || || |     ||| |  |||  |  | ||| |    |||| ||| ||  ||   ||  | ||||||| ||||  |||||||| ||
CAGCATGGCTTCCTCGGCAAACCTTTGGGCACTCATCATGGACGCAGGAACTGGTTTCTGTTCTCAGGTTTATGAGCTCTTACTAGTTTTCCTCCACAAGgtacaatattatactatccgagtgaagcctgacgacca-tacctaataattaattgatttagccaggaagcgtaactctatttctgattatacacag

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G110085_T01 (Zea mays), 5'ss of exon 8
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaat-ctgt-----tgaggtgtgataattagtacttgg--attatttgttt--gctgagagtcctaactctgtttc-aattatacatag
  ||||||| || || ||||| |||||||| ||||| ||||| |||||||||||||||  |||||| ||| ||||||||||||| ||||| || || |||||| | ||  || || |     ||| |  |||  |  | ||| |    |||| ||| ||  |||  ||    ||||||||||||  |||||||| ||
CAGTGTGGCTTCCTCGGCAAACCTTTGGGCACTCATCATGGACGCAGGAACTGGTTTCTGTTCTCAGGTTTATGAGCTCTCACCGGTTTTCCTCCACAAGgtacaatattatactatccgagtgaagcctgacgacca-tacctaataattaattgatttagctaggaagtgtaactctgtttctgattatacagag

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G480263_T01 (Zea mays), 5'ss of exon 9
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaat-ctgt-----tgaggtgtgataattagtacttgg--attatttgttt--gctgagagtcctaactctgtttc-aattatacatag
  | ||||| || || ||||| |||||||| ||||| ||||| ||| |||||||||||  |||||| ||| ||||||||||||||||||| || || |||||| ||||  || || |     ||| |  |||  |  | ||| |    |||| ||| ||  ||   ||  | ||||||||||||  |||||||| ||
CAGCGTGGCTTCCTCGGCAAACCTTTGGGCACTCATCATGGACGCAAGAACTGGTTTCTGTTCTCAGGTTTATGAGCTCTCACCAGTTTTCCTCCACAAGgtacagtattatactatctgagtgaagcctgacgacca-tacctaataattaattgatttagccaggaagcgtaactctgtttctgattatacacag

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G508368_T01 (Zea mays), 5'ss of exon 6
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaat-ctgt-----tgaggtgtgataattagtacttgg--attatttgttt-gctgagagtcctaactctgtttc-aattatacatag
  | ||||| || || ||||| |||||||| ||||| ||||| |||||||||||||||  |||||| ||| ||||||||||||||||||| || || |||||| ||||  || || |     ||| |  |||  |  | ||| | |  |||| || ||| ||   ||  | ||||||||||||  |||||||| ||
CAGCGTGGCTTCCTCGGCAAACCTTTGGGCACTCATCATGGACGCAGGAACTGGTTTCTGTTCTCAGGTTTATGAGCTCTCACCAGTTTTCCTCCACAAGgtacagtattatactatccgagtgaagcctgacgacca-tacctagtaattaattatttagccaggaagcgtaactctgtttctgattatacacag

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 13
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaatctgttgaggtgtgataattagtacttggattatttgtttgctgagagtc---ctaact--ctgtttcaattatacatag-----------------------
 |||||||| ||| |||||||||| ||||| || || |||||||||||||| |||||   ||| |||||| ||||| | || || |  || ||||| |||||    |      |  |    |   ||||||  |  || | | | |   |   |  ||||     ||| |   || |    |  | |   |                       
CTGTGTGGCCTCTGCAGCAAATCTGTGGGCTCTAATCATGGATGCAGGAACAGGTTTTTCTTCACAAGTTTATGAGTTATCCCCGGCCTTCCTGCACAAGgtgggttttttcttccttgatttatataattcatcttttgttaaataaatacgtatgagttaaattaaataattgatgtcttggtgctgggctgctggcattttgatctctcag

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 13
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaatctgttgaggtgtgataattagtacttggattatttgtttgctgagagtcctaactctgtttcaattatacatag
 ||||| || ||  |||| ||||| |||||||||||||||||||| || ||||| |||   ||||||||| ||||  | ||| | || || || || |||||||     ||||  |||| |  | |||   |  | |   ||| | | ||  || |   |    | | | ||   |          
CTGTGTAGCATCAGCAGCTAATCTCTGGGCCCTCATAATGGATGCTGGGACTGGATTCACCTCTCAAGTTTATGAATTGTCAACTGTCTTCCTTCACAAGgtaa----taatcgcttgaagcat-ataggaatcaatca-attttatattaactcaccatttgcattttcttggcag---------

upper sequence: LOC_Os07g07560.2 (Oryza sativa), 5'ss of exon 13
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 13
TTGTGTGGCGTCTTCAGCAAATCTTTGGGCCCTCATAATGGATGCAGGAACTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtacaatc---tgttgaggtgtgataatta--gtacttggattatttgtttgctgagagtcctaactctg----tttcaattatacatag
 |||||||| |||||| |||||||||||||||| || |||||||| ||||| ||||    ||| || ||  |||| || ||| | || || ||||||||||| |  |    ||   ||||||  | |  ||  |   ||   ||| ||  |   |  |||| | | || ||  |     |||  ||| |   |||
CTGTGTGGCCTCTTCATCAAATCTTTGGGCCCTTATTATGGATGCGGGAACAGGTTATAGTTCCCAGGTCTATGAACTATCAGCTGTCTTCCTGCATAAGgttattttttttcatgtgttgatttctattatcttctgtgagtgggttcatgcatacctgatactactgacctttcacttttggattttcactag

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|218490208|gb|FG966190.1|FG966190
EST:     CTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAG                         GACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCT
genomic: CTGGTTTCCTTTCTCAAGTTCATGAGCTCTCACCAGTTTTTCTGCATAAGgtaaagtaca ... ttatacatagGACTGGATAATGGATCAGTGGGAGAAGAATTTCTACATAACAGCAATAGCT