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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTTTTTTCAGACTCGGATTGGTCCGCCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcctccgctccctctcccacctcaccgtcctgtatcgtcccctctctaccccggactgaccctctgccttcaccttgccctccacccccctccctccccttctgcggccgtggcgagcaccccaccag

Basic information

species Zea mays
transcript GRMZM2G095969_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095969_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os07g06440.1 (Oryza sativa), 5'ss of exon 1
----------------CTTTTTTTTCAGACTCGGATTGGTCCGCCCTCCTTGTG-------CTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcctccgctccctctcccacctcaccgtcct-------gtatcgtcccctctctaccccggactgaccctctgccttcaccttgccctccacccccctccctccccttctgcggc-----cgtggcgagcaccccaccag
                    |    |  | ||||| |    | || ||     |       |  || |||| ||||||||||||| |||||||||||||||| ||| | ||  ||| ||||||  |||| ||  |||       |   |   |   ||    || ||||||||||   ||||||  ||   ||||| | |  || | || || ||| ||||     || | ||||||         
CCCAAACACGAAGACCGGCCTCGGCCCAATTCGGACTCTCTCCCCATCTCGACGGCGGCGGCGGCGGCGGCGATGGCGTCCACCGGCGTCAAGCTCATCGgcgagtgc-tctactctctctcctccctctcctccctctcgctcgcgactctcatgcttctacctggactgacccg--gccttcttctactcctcctctcatcttcttctccgtctccggcgccaccgcgacgagcag--------
















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|211487334|gb|FL145767.1|FL145767
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|76936926|gb|DV174965.1|DV174965
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481566|gb|FL145739.1|FL145739
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481567|gb|FL145740.1|FL145740
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484447|gb|FL145748.1|FL145748
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211487326|gb|FL145759.1|FL145759
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211487336|gb|FL145769.1|FL145769
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211487327|gb|FL145760.1|FL145760
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|94477631|gb|EB706589.1|EB706589
EST:     CTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484455|gb|FL145756.1|FL145756
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484456|gb|FL145757.1|FL145757
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211487328|gb|FL145761.1|FL145761
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|71774366|gb|DR972244.1|DR972244
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|76021692|gb|DT948862.1|DT948862
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|74242558|gb|DT650472.1|DT650472
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484454|gb|FL145755.1|FL145755
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481564|gb|FL145737.1|FL145737
EST:     CCGTCCTTGTGCTCCGCCGGCNATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|71434563|gb|DR815613.1|DR815613
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211487335|gb|FL145768.1|FL145768
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484453|gb|FL145754.1|FL145754
EST:     GTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: GTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481559|gb|FL145732.1|FL145732
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484445|gb|FL145746.1|FL145746
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|89251475|gb|DY623261.1|DY623261
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481563|gb|FL145736.1|FL145736
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484450|gb|FL145751.1|FL145751
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481568|gb|FL145741.1|FL145741
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|78108903|gb|DV527320.1|DV527320
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|37421738|gb|CF648570.1|CF648570
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484449|gb|FL145750.1|FL145750
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211487330|gb|FL145763.1|FL145763
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|37419762|gb|CF647566.1|CF647566
EST:     CGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481565|gb|FL145738.1|FL145738
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481570|gb|FL145743.1|FL145743
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481560|gb|FL145733.1|FL145733
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|71325561|gb|DR799471.1|DR799471
EST:     CTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211481561|gb|FL145734.1|FL145734
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211487331|gb|FL145764.1|FL145764
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|211484443|gb|FL145744.1|FL145744
EST:     CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG
EST: gi|87157799|gb|DY402588.1|DY402588
EST:     CCGTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCG                         ACATCGCAGTCAACTTCACAG
genomic: CCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcct ... accccaccagACATCGCAGTCAACTTCACAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTTTTTTTCAGACTCGGATTGGTCCGCCCTCCTTGTGCTCCGCCGGCAATGGCGTCCACCGCCGTCAAGCTCATCGgcaagttcctccgctccctctcccacctcaccgtcctgtatcgtcccctctctaccccggactgaccctctgccttcaccttgccctccacccccctccctccccttctgcggccgtggcgagcaccccaccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - CTCCGCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -CACCGCCG