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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taaggccgcccttaactgtctttttgcaaatctccatagcaaatgtctcagttctgataatcctatgccacattcttttgcagggtttgtgcatgtatgcaggtatataactcattcttttcttctcgcaaccttactgatcagggctcttgtgaaccaaaccctcacatatccttcttgtggcattgaaATAAATGCAAATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGATGGAAAGTTCAGCCCACAGCCTATGGCAGTGCCCCCGGTGCAACAAATGTCA

Basic information

species Zea mays
transcript GRMZM2G060564_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060564_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g03180.1 (Oryza sativa), 3'ss of exon 7
taaggccgcccttaactgtctttttgcaaatctccatagcaaatgtctcagttctgataatcctatgccacattcttttgcagggtttgtgcatgtatgcaggtatataactcattcttttcttctcgcaaccttactgatcagggctcttgtgaaccaaaccctcacatatccttcttgtggcattgaaATAAATGCAAATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGATGGAAAGTTCAGCCCACAGCCTATGGCAGTGCCCCCGGTGCAACAAATGTCA----------------
                                                                                                      ||| | |   |||  | |  ||   |     ||||| |      |||||     |  |||| |  | ||||| |||| |  || ||||||  |||    ||||||| || |||||| | |||||||||||||| ||||| |||||| |||||||||| ||||||||||| ||  |||| ||||||||                 
------------------------------------------------------------------------------------------------------gtaaaca-tacataatatctttggtgattatttactca------ctctt-----cttaacctttgcgtatccatcttatc-cactgaaatgcatg----tgcagACCCAACACAAAATTGAAATGGACAAGAGAGATGGGAAGTTCGGCCCACAGCCCATGGCAGTGCCTCCAATGCAGCAAATGTCGCGCATCGATCAGCCTA

upper sequence: GRMZM2G060564_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT4G23470.3 (Arabidopsis thaliana), 3'ss of exon 7
taaggccgcccttaactgtctttttgcaaatctccatagcaaatgtctcagttctgataatcctatgccacattcttttgcagggtttgtgcatgtatgcaggtatataactcattcttttcttctcgcaaccttactgatcagggctcttgtgaaccaaaccctcacatatccttcttgtggcattgaaATAAATGCAAATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGATGGAAAGTTCAGCCCACAGCCTATGGCAGTGCCCCCGGTGCAACAAATGTCA----------------
                                                                                                         ||  |    |  |  | |  |  |||||       ||    ||||  | |   ||| ||| |||       |||  || | |      ||| |   || |||| || |||||  | ||||||||||||||||| || |||||| | |||||||| ||||||||||| ||||  || |||||||||                
--------------------------------------------------------------------------------------------------------gtacgagcagtgatgatatcatatcaaccc----attccaatctctccttacttaaatcct-aca-------cttacggtaatatctataatacttttgtagACACAACACAAGATGGAAATGGACAAGAGGGACGGTAAGTTCGGGCCACAGCCAATGGCAGTGCCTCCGGCTCAGCAAATGTCACGGTTTGATCAAGCCA

upper sequence: GRMZM2G060564_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ27753 (Selaginella moellendorffii), 3'ss of exon 7
taaggccgcccttaactgtctttttgcaaatctccatagcaaatgtctcagttctgataatcctatgccacattcttttgcagggtttgtgcatgtatgcaggtatataactcattcttttcttctcgcaaccttactgatcagggctcttgtgaaccaaaccctcacatatccttcttgtggcattgaaATAAATGCAAATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGATGGAAAGTTCAGCCC------ACAGCCTATGGCAGTGCCCCCGGTGCAACAAATGTCA----------
                                                                                                                       |    | | |||   | |  | |  |   |  ||||  |||    | |||  | | | ||||   |||    |   | |     ||||| |||||||||||||| ||||||||| |||| ||||| ||| ||||       |  || |||  ||  ||  |  | ||    |||||           
----------------------------------------------------------------------------------------------------------------------gtaagacgcacaaaacttccaaccgag---cccgtga--caatggttgacaagttcgt-ttgta-tattttgttttgttcttccacagACACAGCACAAAGTCGAGATGGACAAGTGGGACGGAAAATTCGGCCCCGTCGAGCGTCCAATGCAAGCTCCAGCATTCCAGATGATGTCCCGGATCGATC

upper sequence: GRMZM2G060564_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ37190 (Selaginella moellendorffii), 3'ss of exon 7
taaggccgcccttaactgtctttttgcaaatctccatagcaaatgtctcagttctgataatcctatgccacattcttttgcagggtttgtgcatgtatgcaggtatataactcattcttttcttctcgcaaccttactgatcagggctcttgtgaaccaaaccctcacatatccttcttgtggcattgaaATAAATGCAAATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGATGGAAAGTTCAGCCC------ACAGCCTATGGCAGTGCCCCCGGTGCAACAAATGTCA----------
                                                                                                                       |    | | |||   | |  | |  |   |  ||||  |||    | |||  | ||| ||||   |||    |   | |     ||||| |||||||||||||| ||||||||| |||| ||||| ||| ||||       |  || |||  ||  ||     | ||    |||||           
----------------------------------------------------------------------------------------------------------------------gtaagacgcacaaaacttccaaccgag---cccgtga--caatggttgacaagttctt-ttgta-tattttgttttgttcttccacagACACAGCACAAAGTCGAGATGGACAAGTGGGACGGAAAATTCGGCCCCGTCGAGCGCCCAATGCAAGCTCCAGGATTCCAGATGATGTCCCGGATCGATC

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|71449020|gb|DR830070.1|DR830070
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|78078643|gb|DV507055.1|DV507055
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|91048377|gb|EB158795.1|EB158795
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|50336576|gb|CO531702.1|CO531702
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|101399172|gb|EB821460.1|EB821460
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|71330287|gb|DR801905.1|DR801905
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|74234235|gb|DT642149.1|DT642149
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|26456824|gb|CA828407.1|CA828407
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|76284637|gb|DV024205.1|DV024205
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|148953515|gb|EE153023.2|EE153023
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|149095487|gb|EE181140.2|EE181140
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|20512803|gb|BQ280001.1|BQ280001
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGCCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|71447386|gb|DR828436.1|DR828436
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|74246183|gb|DT654097.1|DT654097
EST:     CAGAGGCTCCCCAGATCTTTAA-TGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCA--AATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|76014988|gb|DT942158.1|DT942158
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|148937865|gb|EC882083.2|EC882083
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|148949975|gb|EC895492.2|EC895492
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|74245152|gb|DT653066.1|DT653066
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|149089290|gb|EE178503.2|EE178503
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|71321160|gb|DR797280.1|DR797280
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|71311330|gb|DR791989.1|DR791989
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|78107038|gb|DV525456.1|DV525456
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|71312763|gb|DR792909.1|DR792909
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|71768464|gb|DR966401.1|DR966401
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|71315575|gb|DR794393.1|DR794393
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
EST: gi|50337111|gb|CO532237.1|CO532237
EST:     CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACG                         GTTTGTGCATGTATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT
genomic: CAGAGGCTTCCCAGATCCTTAATTGTCTGTCTGATTTGGTCTACTGGACGtaaggccgcc ... tggcattgaaATAAATGCAA--ATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgatcagggctcttgtgaaccaaaccctcacatatccttcttgtggcattgaaATAAATGCAAATGCAGACGCAGCACAAAGTCGAAATGGACAAGAGGGATGGAAAGTTCAGCCCACAGCCTATGGCAGTGCCCCCGGTGCAACAAATGTCA
                                    tccttcttgt  CT-rich tract