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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGCTACAAACACTCTGGAGCGAGTGGCCCCTCTGACGCATGCCGTTGGCAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatttttcccccatgcctttacgaattgaaaattacaaatttgttatgttcgttgcattttttgtttgatgtgtttatgcctagcctaacacttggtaaatcatatgttaaacag

Basic information

species Oryza sativa
transcript LOC_Os01g13770.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g13770.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G070605_T01 (Zea mays), 5'ss of exon 10
GTTGCTACAAACACTCTGGAGCGAGTGGCCCCTCTGACGCATGCCGTTGGCAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatttttcccccatgcctttacgaattgaaaattacaaatttgttatgttcgttgcattttttgtttgatgtgtttatgcctagcctaacacttggtaaatcatatgttaaacag
 ||||||| |||||  ||||||||||||| |||||||| ||||| || ||||||||||||||  | || || |||||||| ||||| ||| ||||||||||| |||          ||   ||    |                  |||||   | |  |||   | |  | | |||    | |  ||||| ||||||||| |||| |  |          
ATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTGgtgagtggacgacagtccccccccccccc----------------cttgttt--tcccctgctgctgtgatgtaatgc---tctagctagc-taacacttgctaaacctcacag-------

upper sequence: LOC_Os01g13770.3 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ38162 (Selaginella moellendorffii), 5'ss of exon 9
GTTGCTACAAACACTCTGGAGCGAGTGGCCCCTCTGACGCATGCCGTTGGCAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt--tttcccccatgcctttacgaattgaaaattacaaatttgttatgttcgttgcattttttgtttgatgtgtttatgcctagcctaacacttggtaaatcatatgttaaacag
 ||||||  |||||| ||||||||||||||||||| |||||||| || ||||| ||  | || || || ||||||||||| ||||| ||| || |||||||||||   ||   ||||  |    || | |   | |       | | | |     |   |||   ||| | |                                                   
ATTGCTAACAACACTTTGGAGCGAGTGGCCCCTCTAACGCATGCTGTCGGCAACGTTCTAAAGAGAGTGTTCGTCATTGGTTTCTCTATCGTTATTTTTGgtaagctcttggcttccttctcttctcttctcttagtcctcctcgagtctaactcgcgagtt---tttctag---------------------------------------------------

upper sequence: LOC_Os01g13770.3 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ15759 (Selaginella moellendorffii), 5'ss of exon 10
GTTGCTACAAACACTCTGGAGCGAGTGGCCCCTCTGACGCATGCCGTTGGCAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatttttcccccatgcctttacgaattgaaaattacaaatttgttatgttcgttgcattttttgtttgatgtgtttatgcctagcctaacacttggtaaatcatatgttaaacag
 ||||||  |||||| ||||||||||||||||||| |||||||| || ||||| ||  | || || || ||||||||||| ||||| ||| || |||| ||||||   ||     ||    | | |   | |         | | | |     |   |||   ||| | |                                                   
ATTGCTAACAACACTTTGGAGCGAGTGGCCCCTCTAACGCATGCTGTCGGCAACGTTCTAAAGAGAGTGTTCGTCATTGGTTTCTCTATCGTTATTTTCGgtaagctcttggcttccttctcttctcttagtcc---tcctcgagtctaactcgcgagtt---tttctag---------------------------------------------------

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|88215807|gb|CI215656.1|CI215656
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86418717|gb|CI053518.1|CI053518
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|29640948|gb|CB645955.1|CB645955
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86528722|gb|CI168928.1|CI168928
EST:     GAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: GAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88972974|gb|CI019593.1|CI019593
EST:     TTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCCACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: TTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88214268|gb|CI214117.1|CI214117
EST:     TGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: TGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86505322|gb|CI147955.1|CI147955
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88980311|gb|CI026578.1|CI026578
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88975808|gb|CI024059.1|CI024059
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|87012744|gb|CI295188.1|CI295188
EST:     CATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|89169034|gb|CI020574.1|CI020574
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88971539|gb|CI017853.1|CI017853
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86840531|gb|CI333826.1|CI333826
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTCCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86874333|gb|CI335945.1|CI335945
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCACCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88214214|gb|CI214063.1|CI214063
EST:     GAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: GAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86522230|gb|CI162436.1|CI162436
EST:     AAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: AAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|33797638|gb|CF324678.1|CF324678
EST:     AATGTGTT-AAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: AATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88219350|gb|CI218910.1|CI218910
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86525001|gb|CI165207.1|CI165207
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88979266|gb|CI025768.1|CI025768
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|88225172|gb|CI225088.1|CI225088
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
EST: gi|86250673|gb|CI003791.1|CI003791
EST:     CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG                         GCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG
genomic: CAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTGgtaagtaatt ... tgttaaacagGCAACAGAATTACCACACAGACTGGAATTGGTACTTGCATTGCCATAGCTG