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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACGGAGTTACTTCTTTGGCTCTTAGATGAAAGGGTTCCTCTTATGGATGATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaatttctttttcatgctccctttgctctagttgtgctttctttaatggttctgttttaaacag

Basic information

species Zea mays
transcript GRMZM2G009849_T02
intron # 27
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009849_T02 (Zea mays), 5'ss of exon 27
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 44
TACGGAGTTACTTCTTTGGCTCTTAGATGAAAGGGTTCCTCTTATGGATGATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaatttctttttcatgctccctttgct--ctagttgtgctttctttaatggttctgttttaaacag
 || ||| |||| ||||||||||||||||||||||||||||||||||||||||| || ||  |||||||||| |||||||| ||||||||||||||| |||| |  |   ||| |||||||||||  |||  |  ||| |||| |||| | |||||||  |  ||  | |||
CACAGAGCTACTACTTTGGCTCTTAGATGAAAGGGTTCCTCTTATGGATGATGGAAGTCAGCTACTCAAAGCTCTAAATGTCTTGATGCTTAAAATCTTGgtttgtat-cttcattttcatgctcagtttagttgctacttgttcttt-tctaatggtcatacttggagcag

upper sequence: GRMZM2G009849_T02 (Zea mays), 5'ss of exon 27
lower sequence: GLYMA20G32430.1 (Glycine max), 5'ss of exon 46
TACGGAGTTACTTCTTTGGCTCTTAGATGAAAGGGTTCCTCTTATGGATGATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaatttcttttt-catgctccctttgctcta-gttgtgctttc-tttaatggttctgttttaaacag------------------------------------------------------------
||| ||| | ||||| |||||||| ||||| |||||||||| |||||||||||| ||||||||  | |||||  ||||||| ||||||||||| ||  ||||    || | | | | | |   | |||| |  | |  ||||  ||     || | |  | ||    |   ||                                                            
TACTGAGCTTCTTCTGTGGCTCTTGGATGATAGGGTTCCTCATATGGATGATGGAAGCCAATTGTTGAAAGCTTTAAATGTGTTGATGCTTAAGATTTTGgttaggaagtctttctctgccctccccctctattttctgttgaactgaaacttcaggcatttggcagatgtaggataatatggagaaaaacattatgatgcagctatttagtaactagtgtttgtcaatacag

upper sequence: GRMZM2G009849_T02 (Zea mays), 5'ss of exon 27
lower sequence: GLYMA10G35140.1 (Glycine max), 5'ss of exon 47
TACGGAGTTACTTCTTTGGCTCTTAGATGAAAGGGTTCCTCTTATGGATGATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaattt--ctttttcatgctccctttgctctagttgtgctttctttaatggttc-tgttttaaacag--------------------------------------------
||| ||| | ||||| |||||||| ||||| |||||||||| |||||||||||| ||||||||  | |||||  ||||||| ||||||||||| || |||||    || | |  || | ||   |||||  | ||  ||   | |      |    |||  | |  | || |                                             
TACTGAGCTTCTTCTGTGGCTCTTGGATGATAGGGTTCCTCATATGGATGATGGAAGCCAATTGTTGAAAGCTTTAAATGTATTGATGCTTAAGATTCTGgttaggaactctgtctgtgtctctctccccctccttcaggcattcagcagatgtcagtttatatgctgaagaacattccggtgcagctattttagtaactagtgtttgtcaatacag

upper sequence: GRMZM2G009849_T02 (Zea mays), 5'ss of exon 27
lower sequence: AT2G35630.1 (Arabidopsis thaliana), 5'ss of exon 46
TACGGAGTTACTTCTTTGGCTCTTAGATGAAAGGGTTCCTCTTATGGATGATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaatttctttttcatgctccctttgctctagttgtgctttctttaatggttctgttttaaacag---------------------------
 || ||| |  | ||||||||  | |||||||| ||||| |  ||||| ||||| || ||| | || ||||| || ||||||||||||||||| ||||||||   || || |   || ||||||     |  ||    | ||      | ||    ||||  || |  |                            
AACAGAGCTCTTGCTTTGGCTTCTGGATGAAAGAGTTCCACGCATGGAAGATGGGAGTCAACTTCTTAAAGCTCTGAATGTTTTGATGCTTAAGATCCTGgt---cagatattcgttccatgctaaaggttttcatcatatgtggctatgaagttctctgacttcattatttttatttcttgttttatttaattcag

upper sequence: GRMZM2G009849_T02 (Zea mays), 5'ss of exon 27
lower sequence: Vv00s0652g00030.t01 (Vitis vinifera), 5'ss of exon 16
TACGGAGTTACTTCTTTGGCTCTTAGATGAAAGGGTTCCTCTTATGGATGATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaatttctttttcatgc-tccctttgctctagtt--gtgctttctttaatggttctgttttaaacag----------------
 || ||| |  | |||||||| || |||||||||||||||| ||||||||||||||||||| | || ||||| || ||||||||||||||||| |||||||| |      | |||   ||||  |   |||| | || ||   |  | ||| |  |    |  || | |  ||                
CACTGAGCTTTTGCTTTGGCTTTTGGATGAAAGGGTTCCTCATATGGATGATGGCAGCCAACTTCTGAAAGCTCTGAATGTTTTGATGCTTAAGATCCTGgt-taagttctacttcaacatgtataaatttgttgtattttcatagtatctgttctctcgccattctgactagtggcttacaaatgcag

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|194717113|gb|FK934266.1|FK934266
EST:     ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGTTTAAAATCTTG                         GATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
genomic: ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaat ... ttttaaacagGATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
EST: gi|61118500|gb|DN559461.1|DN559461
EST:     ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTG                         GATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
genomic: ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaat ... ttttaaacagGATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
EST: gi|87152573|gb|DY397362.1|DY397362
EST:     ATGGCAGCCAATTACTCAAAGCGCTAAATGTTTTGATGCTTAAAATCCTG                         GATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
genomic: ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaat ... ttttaaacagGATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
EST: gi|32847226|gb|CD986907.1|CD986907
EST:     ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTG                         GATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
genomic: ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaat ... ttttaaacagGATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
EST: gi|67035401|gb|CO463934.1|CO463934
EST:     ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTG                         GATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG
genomic: ATGGCAGCCAATTACTCAAAGCACTAAATGTTTTGATGCTTAAAATCCTGgtatccaaat ... ttttaaacagGATAATGCTGAGAGAACATCCTCGTTTGTTGTGCTGATTAATTTGCTGAGG