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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc...

Basic information

species Zea mays
transcript GRMZM2G067985_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc---
|||||||||||||| ||||||||||||||||||||||| ||||| ||||| || || ||||| || || || || |||||||| ||||| |||||||||||||||     |  | ||  |  ||||  | |  ||   |     | | || |  ||    ||  | | ||||||   | |||||   |  ||| ||| |    
GAGAAGATGACCCAGATTATGTTTGAGACTTTCAATGTCCCTGCAATGTACGTCGCTATCCAGGCCGTGCTTTCCCTCTATGCCAGTGGCCGTACTACTGgtatgtatgaactcatctctgtcttttacttcaatgaggagggtttgctc-aattat--gcacttgtatgatccacctctgctgccatacacttttttttaat

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G15520.2 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc
|| || ||||||||||| ||||||||||| |||||||| |||||||||||||| || ||||| || || || || || ||||| ||||| || || |||||| ||  || ||       || | |  |  || ||||| |    |   |  |  | |    |||   ||||  | ||| |  |    |||          
GAAAAAATGACCCAAATCATGTTTGAGACCTTCAATGTGCCTGCCATGTATGTGGCCATCCAGGCTGTCCTCTCCCTATATGCAAGTGGTCGCACAACTGgtttgtacttat-------ttccatctgtcttaattcactcctttgtcttcacattgttctatcc--ttgaatcaaatctttttgaatcag---------

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatcctt--cctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc
|||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| || || ||  | || || ||||| |||||  | ||||| ||| ||      |  ||   |||   |||  |  |  | |  |    | ||  | |  |     ||    |||  ||   |||     |     |||| | | 
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTGCCTGCCATGTATGTTGCAATTCAGGCTGTCTTGTCTCTGTATGCCAGTGGAAGAACTACAGgtttgtttctgtgattgatcttggatttaccaattttactatactgtggtcat-gtgatttcaattggattgggccagttatttgaataaatgctgtatgt-

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G32220.1 (Glycine max), 5'ss of exon 2
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatg-acctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaac--atctctttgatcccaatatgctgttgtcaactgtttatc
|| |||||||||||||| ||||||||||| |||||||| |||||||||||||| || ||||| || ||||| ||  | ||||| ||||| || || |||||| || |  | | | |   | |   ||     |  |  | |  |||  ||||  |    ||   ||  |||| |   ||                        
GAAAAGATGACCCAAATCATGTTTGAGACCTTCAATGTGCCTGCCATGTATGTGGCCATCCAGGCTGTTCTCTCCTTGTATGCCAGTGGTCGCACAACTGgtttgtatattaccatctgtcttgattcattcttttataatcacatcattctttccctgaatcaattcctttcaaaacag-----------------------

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA15G05570.1 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtc--aactgtttatc---
|||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| || || ||  | || || ||||| ||||| |||||||| |||      || | ||    ||  | | |  || | |   |   |||       |  |  |  ||  || |||      |   | || ||  | |   ||      
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTGCCTGCCATGTATGTTGCAATTCAGGCTGTCTTGTCTCTGTATGCCAGTGGACGTACTACAGgt-----ttgtttctgtgattgatcttggatttactatttactataccgtggacatgtgatttcaattggattaggtcagcttattatctgagcaaattcctgta

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G15480.1 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatg-acctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaac--atctctttgatcccaatatgctgttgtcaactgtttatc
|| |||||||||||||| ||||||||||| |||||||| |||||||||||||| || ||||| || ||||| ||  | ||||| ||||| || || |||||| || |  | | | |   | |   ||     |  |  | |  ||| |||||  |    ||   ||  |||| |   ||                        
GAAAAGATGACCCAAATCATGTTTGAGACCTTCAATGTGCCTGCCATGTATGTGGCCATCCAGGCTGTTCTCTCCTTGTATGCAAGTGGTCGCACAACTGgtttgtatatcaccatctgtcttgattcattcttttataatcacattgttctttccctgaatcaattccttttaaaacag-----------------------

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G39380.2 (Glycine max), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc
|| || ||||||||||| ||||||||||| |||||||| |||||||||||||| || |||||||| || || || || ||||| ||||| || || |||||| ||   |  |  | | | |  ||     || ||  |||||  |  |   |          | ||  |||  | ||||   | |    ||| |      
GAAAAAATGACCCAAATCATGTTTGAGACCTTCAATGTGCCTGCCATGTATGTGGCCATCCAAGCTGTCCTCTCCCTATATGCAAGTGGTCGCACAACTGgtttgtatttgta-tccatctgtttcaa--ttcat--agttttgtcatcaca----ttgttctttccctgaatcaaatactttctga--aacag------

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT1G49240.1 (Arabidopsis thaliana), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacc--tgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc
||||||||||| || || ||||||||||| || |||  ||| || ||||||||||| || ||||| ||||||||||| || || ||||| ||||| || |||  |  |  |  |  |  |   |   ||       ||  ||||  |  || ||  |    |  ||   |||||| || |    || | |    |       
GAGAAGATGACTCAGATCATGTTTGAGACCTTTAATTCTCCAGCTATGTATGTTGCCATTCAAGCTGTTCTATCACTTTACGCCAGTGGTCGTACAACCGgttagttcattattaatgtcgagaaaatgaacaaagttttgttttctgtttttaa-tgattatgtcatattgatcacagtgaaatgattttctttag-----

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 3
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc
||||||||||| || || ||||||||||| |||||||| ||||||||||||||||| || || || ||||| || |||||||| ||||| ||||| || |||  |  || | |    ||  || |    ||    | ||||  ||  | ||   ||     || |  || |   |  | |  | |||| ||| |      
GAGAAGATGACTCAGATCATGTTTGAGACATTCAATGTCCCTGCCATGTATGTTGCCATTCAGGCCGTTCTTTCTCTCTATGCCAGTGGTCGTACAACCGgttagttcttaact---ctaaacatccaagt---ctgagttatattat-cttcttacttgtatttacttaaagtcgttctctttttgt-aacag------

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 5'ss of exon 4
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc
|| |||||||| ||||| |||||||||||||| ||||| ||||||||||||||||| || || || ||||| || || ||||| ||||||||||| ||||||  |   | |   |   |||   ||||  ||  |||| |||  |  ||   | |   |   |  | |   | | ||  ||||  | |  |||       
GAAAAGATGACTCAAATCATGTTTGAGACTTTTAATGTGCCTGCCATGTATGTTGCCATTCAGGCTGTTCTTTCTCTATATGCCAGTGGGCGTACAACTGgttcgtattaaaa-tctttttggattggaatt--ttcatttttct--tttctgttgttagtgtagcctgagttctaacttgctcct-ttgactag-----

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 2
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatg-acctgatccttcctttactttggcgttgattcagtttcatagttctagctagcaacatctctttgatcccaatatgct---gttgtcaactgtttatc
||||| |||||||| |||||||||||||| ||||| || ||||||||||||||||| |||||||| || || || || ||||| ||||| ||||| || ||| ||   |  | |  | |      | |  |   | |      | |  || |   |       | || ||| ||  | ||| ||      || | |  ||    
GAGAAAATGACCCAGATTATGTTTGAGACCTTCAACGTACCTGCCATGTATGTTGCTATCCAAGCTGTGCTGTCTCTGTATGCCAGTGGTCGTACAACAGgtttgtgtcaaagcactgcaagttgtagaagcaaaatacaagacctttttgtgtgtgtgtgtgtgtcattgttcatattattcttgaaccgttagccatt----

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ17401 (Selaginella moellendorffii), 5'ss of exon 2
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatga-----cctgatccttcctttactttggc-------gttgattca-gtttcatagttcta--gctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc------------------------------------
|||||||||||||| || ||||| ||||| |||||||| || |||||||| || || ||||||||||| || |||||||| || ||||| || ||||| ||||||        | |||| |   ||  | | |        |||||| |  ||||| |   |     ||| || | |    |       |||  || |  |      ||||| ||                                    
GAGAAGATGACCCAGATCATGTTCGAGACCTTCAATGTCCCGGCCATGTACGTGGCGATCCAAGCAGTCCTTTCACTCTACGCGAGTGGACGCACTACCGgtatggagtttttttatcccttgcttgttctagacaagatggttgatgcgtgtttcttttcttcgttgcttgcgatagacatgatgcttcaagttggttctactt-ttgtttttccctctaacacgttgtatgatcgtggtttgtgatcag

upper sequence: GRMZM2G067985_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ35077 (Selaginella moellendorffii), 5'ss of exon 2
GAGAAGATGACCCAAATTATGTTTGAGACTTTCAATGTTCCTGCCATGTATGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatga--cctgatccttcctttactttggc-----------gttgattca-gtttcatagttcta--gctagcaacatctctttgatcccaatatgctgttgtcaactgtttatc------------------------------------
|||||||||||||| || ||||| ||||| |||||||| || |||||||| || |||||||||||||| || |||||||| || ||||| || ||||| ||||||     |  |  ||||||| |||   |           |||||| |  ||||| |   |     ||| || | |    |       |||  || |  |      | ||  ||                                    
GAGAAGATGACCCAGATCATGTTCGAGACCTTCAATGTCCCGGCCATGTACGTGGCAATCCAAGCAGTCCTTTCACTCTACGCGAGTGGACGCACTACCGgtatggagttttttttttcctttgcttgttctagacaagatggttgatgcgtgtttcttttcttcgttgcttgcgatagacatgatgcttcaagttggttctacttttttttcttctctctaacacgttgtatgatcgtggtttgtgatcag

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|211471833|gb|FL184449.1|FL184449
EST:     TATGCTAGTGGGCGTACTACTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|211469310|gb|FL184438.1|FL184438
EST:     TATGCTAGTGGGCGTACTACTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|31355571|gb|CD439928.1|CD439928
EST:     TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTG                         GTATTGTTCTT-GACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|67031467|gb|CO460216.1|CO460216
EST:     TGTTGCAATCCAAGCAGTGCTCTCACTCTATGCTAGTGGGCGTACTACTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|211466785|gb|FL184425.1|FL184425
EST:     TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTG                         GTATTGTTCTT-GACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|5325045|gb|AI783236.1|AI783236
EST:     GCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: GCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|211466786|gb|FL184426.1|FL184426
EST:     TATGCTAGTGGGCGTACTACTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|211471834|gb|FL184450.1|FL184450
EST:     TATGCTAGTGGGCGTACTACTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|5846857|gb|AI999940.1|AI999940
EST:     GCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTG                         GTATTGNTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: GCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|116815584|gb|EC858264.1|EC858264
EST:     TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|62550511|gb|DN830931.1|DN830931
EST:     GTGGGCGTACTGCTG                         GTATTGTTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: GTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
EST: gi|23357518|gb|BU645167.1|BU645167
EST:     TGGTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTG                         GGATTGGTC-TTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC
genomic: TGTTGCAATCCAAGCAGTTCTATCACTCTATGCTAGTGGGCGTACTACTGgtatgacctg ... caatcttcagGTATTGTTCTTTGACTCTGGTGATGGTGTGAGCCACACTGTGCCCATTTAC