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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc...

Basic information

species Zea mays
transcript GRMZM2G047223_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os08g31840.1 (Oryza sativa), 5'ss of exon 6
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggta-tagtc---
||| |||||||||||||||||||||||||||||||| |||||||| ||||||||||| ||||||||||||||||||||||||||||| || || |||||||| ||||||||  || |||||||     || |||  |||  ||  | ||  ||||||  | ||    || |   | | |     || || |  |  || |    
AAATCCAAGCATGTATGCAAGTCAATGGTTTATCACTGTTTTCTCGTATTCCTTCCCTTTTCATCTAACTCTTAGAGTTTGGGATGTCTTCCTGTATGAGgtcagaatcttgccc-gccatataattgttctgt--ttactttttatctgaggttatgag-ctaagattgactgattttcaaggcacaatttattctaatacat

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os08g31840.4 (Oryza sativa), 5'ss of exon 6
----------------------------------------------------------------------------------------AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc
                                                                                        ||| |||||||||||||||||||||||||||||||| |||||||| ||||||||||| ||||||||||||||||||||||||||||| || || |||||||| ||||||||                                                                                         
CGCTTGTGCAGCAATATCTGTATCAGTTTGAGAAATTAGTTCTGGAGCAAATGCCACAGTTGGGACAGCATTTTATTGAAGAAATGATAAATCCAAGCATgtatgcaagtcaatggtttatcactgttttctcgtattccttcccttttcatctaactcttagagtttgggatgtcttcctgtatgaggtcagaatcttg----------------------------------------------------------------------------------------

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA13G07090.1 (Glycine max), 5'ss of exon 5
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttaga-atcttatcctgccatatgtgcattttgtgtttagat---tgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc
||| || ||||||||||| || || ||||| || || ||||| || || ||||| ||||||||| |  ||||| || |||||||||| ||||| |||||||||||  ||  | |||      |    |||||  || |||||    || ||||    | ||  ||||||  | |     |                        
AAATCCTAGCATGTATGCTAGCCAGTGGTTCATAACTGTTTTTTCGTACTCCTTTCCATTTCATTTGGCTCTTCGAATTTGGGATGTCTTTCTCTATGAGgttagctatgctttccatttgaagaaccatttattggttagaaatatggacctataatgat--gactttcttatccttccag----------------------

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA19G05360.1 (Glycine max), 5'ss of exon 6
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttaga-atcttatcctgccatatgtgcattttgtgtttagat---tgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc
||| || ||||||||||| || || ||||| || || || || ||||||||||| ||||||||| |  ||||| || |||||||||| || || || ||||||||   |  | |||  |   |    |||||  || |||||    || | ||    | ||  ||||||  | |   || |   |                   
AAATCCTAGCATGTATGCTAGCCAGTGGTTCATAACTGTATTTTCATATTCCTTTCCATTTCATTTGGCTCTTCGAATTTGGGATGTCTTCCTCTACGAGgttagttgtgctttccctctgaagaaccatttattggttagagatatggatctataatgat--gactttcttat---cattccag-------------------

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT3G02460.2 (Arabidopsis thaliana), 5'ss of exon 6
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaa--tggtatagtc
 || || || |||||||||||||||||||| ||||| || |||||||| || || || || | | |  ||||  |  | |||||||||||||| |  ||||| |  |  |   | | |   |  |   |||   ||||    ||  |   |  | |||    | |  | ||||    |||| ||| |||   || || | | 
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctctttaacgtttgttgtgatcaaagtttcattctgttatcttctatg-gtcattgtttcttaagggtgttaaaat-

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 6
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc
 || || || |||||||||||||||||||| ||||| || |||||||| || || || || | | |  ||||  |  | |||||||||||||| |  ||||| |  |  |   | | |   |  |   |||   ||||    ||  |   |  | |||    | |  | ||||    |||| ||| |||           
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctctttaacgtttgttgtgatcaaagtttcattctgttatcttctatg-gtcattgtttcttaag----------

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc
|| ||| ||||||||||||||||| ||||| || || ||||||||||| || |||||||| ||| |  ||||| || |||||||||| |||||||||||||||||     ||      |||   |  ||| |      |    |||||     ||||||   | || |     || | ||  | | |     |       
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtctaaaagctcat---taaattct----ccaataggcacc----attattt---tgttttaggaacatttttattccttgggcag-------

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: PP1S15_13V6.1 (Physcomitrella patens), 5'ss of exon 5
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactat-tgcttcataaatg-----gtatagtc
||| |||||||||||||| ||||||||||| ||||| || || ||||| |||||||| ||     || ||||  |  |||||||||||||  |  | ||||||     ||||  || ||   | | | |||       || |     |  | |||||    |||| |  | | || |   ||  |  || |       | ||| ||
AAATCCAAGCATGTATGCTAGTCAATGGTTCATCACCGTCTTTTCATACTCCTTCCCTTTCTCCTTAGCTCTGCGGATTTGGGATGTGTTCTTACACGAGgtttcttgcttactcttcc---tctccctttcag---cagctctttacacgtgttatgcatctttgcaatgtccagttcatgtcttgtagagaagtctggataatc

upper sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
lower sequence: EFJ27331 (Selaginella moellendorffii), 5'ss of exon 5
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc
||||||||||||||| || || || ||||||||||| ||||| || |||||||| || || |  ||| ||||| |  | ||||| || ||||| || |||||| | ||||  | ||  | ||| |   ||||   | |  |  |   |  || |  | | |  || |                                 
AAACCCAAGCATGTACGCCAGCCAGTGGTTTATCACTGTTTTTTCTTATTCCTTTCCGTTCCCGCTAGCTCTTCGGATATGGGACGTTTTTCTGTACGAGgtttgtatctctttcttgcttatctatttttt---tctgaagagttgcgaggctgctattatgttgcag-------------------------------

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|71771757|gb|DR969694.1|DR969694
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|89247292|gb|DY619078.1|DY619078
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|60347298|gb|DN214271.1|DN214271
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|61118400|gb|DN559361.1|DN559361
EST:     CCTTCCCATTCCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|91874335|gb|EB404292.1|EB404292
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|78118514|gb|DV536898.1|DV536898
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|78117554|gb|DV535941.1|DV535941
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|78113904|gb|DV532293.1|DV532293
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
EST: gi|211528671|gb|FL445665.1|FL445665
EST:     CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAG                         GGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC
genomic: CCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatct ... tacctaacagGGTATTAAGGTTGTATTCCAAGTTGGATTGGCTCTATTGAGACTCTGTCAC