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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATGATATCCAGATGGGCAAGCGTGAGGAGACTCGTGATGTTGCTCGAGTACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcatgagttgtatgattaagatttcttttttgtgtttttttaccaacataaccaacaaggacatataatctggatcgtttctttttacatattt...

Basic information

species Zea mays
transcript GRMZM2G046748_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G046748_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g47590.1 (Oryza sativa), 5'ss of exon 2
AGATGATATCCAGATGGGCAAGCGTGAGGAGACTCGTGATGTTGCTCGAGTACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcatgagttgtatgattaagatttcttttttgtgtttttttaccaacataaccaacaaggacatataatctggatcgtttctttttacatattt-------
 |||||||||||||||||||||||||| ||||| |||||||||||||| || |||||||| |||||||| ||||||||||||||||| |||||||| || || || |||| ||      |     | |||  | ||||  | | ||||||  || || | ||  | ||| | |  | | ||     ||    | | | |        
TGATGATATCCAGATGGGCAAGCGTGAAGAGACCCGTGATGTTGCTCGTGTGCTTTCTGGATATAATGACATCATTATGGCCAGGGTTTTTGCTCACCAAgtatgatcataag------gccctggcttttctgtttg-atctgtttaccggcacaatctacttgtacacagatacagaatttaccctacacataaaatctgcatgc

upper sequence: GRMZM2G046748_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G03280.1 (Glycine max), 5'ss of exon 2
AGATGATATCCAGATGGGCAAGCGTGAGGAGACTCGTGATGTTGCTCGAGTACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcatgagttgtatgattaagatttcttttttgtgtttttttacca-acataaccaacaaggacatataatctg-gatcgtttctttttacatattt
 ||||||||||| ||||||||||| ||||||||||||||  ||||||| ||  | ||| |||||||||| |||||||||||  | || ||||||||| |||| || |  |||   ||     | || |   | | ||   |||    |    ||   |   ||       | |  || | ||    || | | | ||| |  
TGATGATATCCAAATGGGCAAGCGAGAGGAGACTCGTGACATTGCTCGTGTTTTGTCTCGCTATAATGACATCATTATGGCTCGTGTTTTTGCTCATAAGgtatgctggtgaccagtgaatgtgagttacttgtatttcatttggccattgtaccgcagttactcatgtttgtggtcagtgaagaattatatctgcatct--

upper sequence: GRMZM2G046748_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA06G03360.1 (Glycine max), 5'ss of exon 2
AGATGATATCCAGATGGGCAAGCGTGAGGAGACTCGTGATGTTGCTCGAGTACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcatgagttgtatgattaagatttcttttttgtgtttttttaccaacata-accaacaaggacatataatctg-gatcgtttctttttacatattt
 ||||| ||||| ||||||||||| ||||||||||||||  ||||||| ||  | ||| |||||||||| |||||||||||  | || ||||||||| |||| || |  |||   ||   ||     || |||| ||   |||    |      || |   ||       |||  |  | ||    || | | | | | |  
CGATGACATCCAAATGGGCAAGCGAGAGGAGACTCGTGACATTGCTCGTGTTTTGTCTCGCTATAATGACATCATTATGGCTCGTGTTTTTGCTCATAAGgtatgctggtgaccggtg-aatgtgacttactttatttcatttggccattggactacagttactcatgtttatggttagtgaagaattatctctgcctcta-

upper sequence: GRMZM2G046748_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G75330.1 (Arabidopsis thaliana), 5'ss of exon 2
AGATGATATCCAGATGGGCAAGCGTGAGGAGACTCGTGATGTTGCTCGAGTACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcatgagttgtatgattaa--gatttcttttttgtgtttttttaccaacataaccaacaaggacatataatct--ggatcgtttctttttacatattt
  |||| || |||||||| ||||| ||||| ||||||||||||||||| || |||||  |||||||||| |||||||||||  | || |||||||||||||| || |  |||||| | ||||| |   ||          |     | ||| |||||  | |         | ||||||  | |   |  ||   | |  ||  
CAATGACATTCAGATGGGTAAGCGGGAGGAAACTCGTGATGTTGCTCGTGTTCTTTCACGCTATAATGACATCATTATGGCTCGTGTATTTGCTCATCAGgtatgctggtgagtt-tttgattgattaataagggaacattagaagtgtacaaacatttcta-tggcttgttctaatctcagaaagataactgcattctcat--

upper sequence: GRMZM2G046748_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv18s0001g12780.t01 (Vitis vinifera), 5'ss of exon 2
AGATGATATCCAGATGGGCAAGCGTGAGGAGACTCGTGATGTTGCTCGAGTACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcatgagttgtatgattaagatttcttttttgtgtttttttaccaacataaccaacaaggacatataatctggatcgtttctttttacatattt-----
|||||||||||||||||| || || ||||| ||||||||||||||||| || || ||| | |||||||| |||||||||||  | || |||||||||||||| || |  |||||| | | ||   | ||  |  |       |||  |      |  |  | | |   || |||    | | | |   ||  || | | |     
AGATGATATCCAGATGGGTAAACGGGAGGAAACTCGTGATGTTGCTCGTGTGCTGTCTTGTTATAATGACATCATTATGGCACGTGTTTTTGCTCATCAGgtatgctggtgagttttttaat---gtttggtagtactcagatttcaattggtcttgc--atatgtgtatttaaagaaggtagatatattccacttctgttgcag

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|71438747|gb|DR819797.1|DR819797
EST:     TAATGATATCATTATGGCCAGGGTCTTTGCTCATCAG                         GATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
genomic: TAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcat ... gttttgacagGATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
EST: gi|211274950|gb|FL031478.1|FL031478
EST:     TACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAG                         GATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
genomic: TACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcat ... gttttgacagGATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
EST: gi|78111650|gb|DV530047.1|DV530047
EST:     TAATGATATCATTATGGCCAGGGTCTTTGCTCATCAG                         GATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
genomic: TAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcat ... gttttgacagGATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
EST: gi|76021130|gb|DT948300.1|DT948300
EST:     TACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAG                         GATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
genomic: TACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcat ... gttttgacagGATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
EST: gi|211274953|gb|FL031481.1|FL031481
EST:     TACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAG                         GATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC
genomic: TACTTTCTGGCTATAATGATATCATTATGGCCAGGGTCTTTGCTCATCAGgtttggtcat ... gttttgacagGATATTCTGGACTTGGCAAAATATGCAGCTGTACCTGTCATAAATGGTCTC