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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGACTGTCATTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgttatcatttccatagtccctgattgtgataaaaactaaaaaggacatacattattagatgtagcttaatcttatggtcatgtcag

Basic information

species Zea mays
transcript GRMZM2G075153_T05
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075153_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g25940.2 (Oryza sativa), 5'ss of exon 5
ATGACTGTCATTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgttatcatttccatagtccctgattgtgataaaaactaaaaaggacatacattattagatgtagcttaatct-tatggtcatgtcag
||||| || ||||| |||||||||||||||||||||||||||||  |||| || ||||||||||||||| | |   | | ||   |  |   | | ||     |||  |    | ||  ||||||     |  || |||  |    ||   ||||
ATGACCGTTATTAGACCTGCTGACATGGATGCTCTCCAAAATGCACTGGATAATAATAATgtgagtgtgatctttgtactatttccttttcctctaatg----ctatcatatgcctat-ttattaaccaaaaatttatccgtgacctctactcag
















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|211234235|gb|FL407898.1|FL407898
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|38229609|gb|CF919922.1|CF919922
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|149074757|gb|EE163186.2|EE163186
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|30705650|gb|CD058859.1|CD058859
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCA
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCA
EST: gi|211303407|gb|FL181618.1|FL181618
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|148948278|gb|EC893795.2|EC893795
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|61119178|gb|DN560139.1|DN560139
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|5343071|gb|AI795481.1|AI795481
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|22133730|gb|BQ833872.1|BQ833872
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACTAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|29946125|gb|CB815991.1|CB815991
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|149108488|gb|EE189677.2|EE189677
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|211066604|gb|FL423906.1|FL423906
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
EST: gi|91873684|gb|EB403641.1|EB403641
EST:     TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAAT                         GTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT
genomic: TTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgt ... gtcatgtcagGTATCTCTTTTCTTCACGGAGACTCCTACAAATCCATTTCTCAGATGCATT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGACTGTCATTAGGCCTGCTGACATGGATGCTCTCCAAAATGCGTTGGACAACAATAATgtgagtgtgttatcatttccatagtccctgattgtgataaaaactaaaaaggacatacattattagatgtagcttaatcttatggtcatgtcag

- - - - - - - - - - -  CATGGA