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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgttcatgttctgtag

Basic information

species Zea mays
transcript GRMZM2G174286_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 5'ss of exon 4
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtac----ctcgttttgtctctgatagacctctctattgttttgttaatgttgtt-gcgcttcttaatttttgttcatgttctgtag
||| | || |||||||||||||||||||| ||||| ||||||||||| || ||||||||| | |||||||||||||| ||||||||||||||||| |    || ||||  ||| || |||  | || |    |||  | | ||   || || | || |||||| ||    | | |  |||
ATACTTCAACATGTGCTTCTAGATATGCCCGGGCTCGCATTCTTCACGACGTATGCACTTTTGGTGCTCTTCTGGGCCGAGATTTATTATCAGgtgctaggctggtttgatctttg-tagttccctgtgacatttcatcagtgcctttagcacctcctaatttgtgaaattttccactag

upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA03G06700.1 (Glycine max), 5'ss of exon 5
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtac-ctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgtt--catgttctgtag-------------------------------------------------
                                 ||||| ||||| ||||||||||||||| | || || |||| ||| ||||||||||| |||| |   | | |||||     ||   | |||  || |||   ||        ||   |||||  |   ||      |||| ||  |                                                 
--------------------------------TCTTGCTTTCTTTACAACATATGCACTTTTGgtcctgttctaggctgagatttattaccaggcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctatgattttcttcttccatggcagtgtgttttgctgattggttttgatgggctaattaccacctgggtgttaaatgcttttgcag

upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtac-ctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgtt-catgttctgtag-------------------------------------------------
||  | || ||  |  | || ||  ||||  | ||||| ||||| ||||||||||||||| | || || |||||||| |||||||||||||||| |   | | |||||     ||   | |||  || |||   ||        ||   |||||  |    ||    |||| ||  |                                                 
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag

upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA20G01360.1 (Glycine max), 5'ss of exon 4
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtac-ctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgtt--catgttctgtag-------------------------------------------------
||  | || ||  |  | || ||  ||||  | ||||| ||||| ||||||||||||||| | || || |||||||| ||||||||||| |||| |   | | |||||     ||   | |||  || |||   ||        ||   |||||| |   ||      |||| ||  |                                                 
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttattccatggcagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgcttttgcag

upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G19410.1 (Glycine max), 5'ss of exon 4
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGg-tacctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgtt--catgttctgtag-------------------------------------------------
||  | || ||  |  | || || ||| |  | ||||| ||||| ||||||||||||||| | || || |||| ||| ||||||||||| |||| ||  | | |||||     ||   | |||  || |||   ||        ||   || ||  |   ||      |||| ||  |                                                 
ATTGTTCAACACATCTTGCTTGACATGTCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGgtcctgttctaggctgagatttattaccaggctagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctatgatttttttcttccatggcagtgtgttttgctgattggttttgatgggctaattaccacctcggtgttaaatgcttttgcag

upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 5'ss of exon 4
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgttcatgttctgtag
||  | || ||| |  | || ||||| ||  | ||||| |||||||| |||||||| ||||| || ||||| |||||||||||||| || ||||||   |   |||  |||| || |  | |  |   ||| |||  |  ||    | || || || |||  ||    |  | ||
ATTCTGCAACATATCTTACTTGATATTCCAAGTCTTGCTTTCTTCACTACATATGCGCTTCTGGTTCTCTTTTGGGCAGAGATTTACTACCAGgtaaacc---ttgattctg-tatatattttca--atttagtttttcctgcattg-ttgttgatatttactctatcttggcag

upper sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 5'ss of exon 4
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgttttgtctctg-atagacctctctattgttttgttaatgttgttgcgcttctta-atttttgttcatgttctgtag---------
||  | || ||| |  | || ||||| ||  | ||||| |||||||| || ||||| ||||| || || |||||||| || |||||||||||||||  |  |  ||  | |  || |   ||| |    |||||| |||| |  |  | || | | |||||  || |   ||| | |         
ATTCTGCAACATATCTTGCTTGATATTCCAAGTCTTGCTTTCTTCACCACCTATGCTCTTCTGGTTCTTTTCTGGGCTGAAATTTATTATCAGgtagtttctaatgagtatctatgggtttcttt----ttttgtcaatgcttctttggttttgatattttacttaacactcttttgattggacag

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|93284395|gb|EB676659.1|EB676659
EST:     TATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: TATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
EST: gi|149112907|gb|EE295706.2|EE295706
EST:     TGCTCTTCGGGGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: TGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
EST: gi|71300276|gb|DR786208.1|DR786208
EST:     GGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: GGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
EST: gi|67017793|gb|CO446542.1|CO446542
EST:     TCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: TCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT