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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTGGGCAAGGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaaggggaaatcttggcgatgcaatataatactcaaaattcctcctctgaaacctgtagctttcag

Basic information

species Zea mays
transcript GRMZM2G126900_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126900_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os06g36560.1 (Oryza sativa), 5'ss of exon 5
ACCTGGGCAAGGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaaggggaaatcttggcga----tgcaatataat---actcaaaattcctcctctgaaacctgtagctttcag---------------------------------------------
| |||||||||||||||||||| || ||||| ||||||||||| |||||| | |||||||||||| ||     ||     || |       | |   ||   ||| ||| ||| ||   |  | |  | | |  |                                                
ATCTGGGCAAGGTGCTGCTGCATCCCAGCTTTGGGGAGCTCCCACAGTGGTCAGTCGTCGgtaagaaacaaacaacagaagcaaacagcttattgccatctcactgaaacttcttcagattcagctaggaacaatagctgaacatccatccatctctgaatctgaatgtctttgacctttcag

upper sequence: GRMZM2G126900_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT1G14520.1 (Arabidopsis thaliana), 5'ss of exon 5
ACCTGGGCAAGGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaag-------caaggggaaatcttggcgatgcaatataatactcaaaattcctcctctgaaacctgtagctttcag------------------------------------------------------------------
              || || ||| |    || || ||||||||||||||||||||||||||| |        ||  ||||  |  |   |||| ||| || |  |||  |         | |   |  ||      |                                                                   
-------------TCTTCTTCACTCTTCATTTGGTGAGCTCCCTCAGTGGGCTGTCGTCGGTGATACATTTCCAGTGGGATGTGCTTTTGATG-AATCTATTGTTCACCACAAGgtacataaggtccttaaacacaatttaaaaactttgtttgagtttcaaaacatatgaaaaattgattccattgcgggtttcttgatgtag
















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|31363556|gb|CD447913.1|CD447913
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|211533467|gb|FL294715.1|FL294715
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCG
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCG
EST: gi|211533468|gb|FL294716.1|FL294716
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGT
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGT
EST: gi|67014192|gb|CO442941.1|CO442941
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGGCA-CGTCCACTTC
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTG-CAACGTCCACTTC
EST: gi|78084506|gb|DV512899.1|DV512899
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|88752150|gb|DY536291.1|DY536291
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|76289997|gb|DV029565.1|DV029565
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|78119916|gb|DV538300.1|DV538300
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|149042044|gb|EE047019.2|EE047019
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|148960892|gb|EE011574.2|EE011574
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|60339537|gb|DN206510.1|DN206510
EST:     CACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: CACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|15554177|gb|BI644175.1|BI644175
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|93281927|gb|EB674191.1|EB674191
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|211530472|gb|FL294712.1|FL294712
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGT
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGT
EST: gi|93284184|gb|EB676448.1|EB676448
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|60397791|gb|DN230607.1|DN230607
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|78112469|gb|DV530863.1|DV530863
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|60342265|gb|DN209238.1|DN209238
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|15057218|gb|BI361190.1|BI361190
EST:     CCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: CCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|93016474|gb|EB641994.1|EB641994
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|78076468|gb|DV504902.1|DV504902
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|78119915|gb|DV538299.1|DV538299
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|148941676|gb|EC886623.2|EC886623
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|40303359|gb|CK347746.1|CK347746
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|101386278|gb|EB815159.1|EB815159
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|67041064|gb|CO467319.1|CO467319
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|149010866|gb|EE042255.2|EE042255
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|78088525|gb|DV516918.1|DV516918
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|76923453|gb|DV169495.1|DV169495
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|154130490|gb|EC872226.2|EC872226
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|149100878|gb|EE186973.2|EE186973
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|71325953|gb|DR799659.1|DR799659
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|60396286|gb|DN229155.1|DN229155
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|93281928|gb|EB674192.1|EB674192
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCCACTTC
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCC-ACTTC
EST: gi|211354362|gb|FL217076.1|FL217076
EST:     GCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAAYG-CNCACTTC
genomic: GCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTC-CACTTC
EST: gi|78114314|gb|DV532703.1|DV532703
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCT
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGAGTGCAACGTCCACTTCA
EST: gi|148942392|gb|EC887411.2|EC887411
EST:     GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCG                         GTGACACCTTCCCCGTCGGCTGCGCATACGACGA
genomic: GGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaagg ... tagctttcagGTGACACCTTCCCCGTCGGCTGCGCATACGACGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCTGGGCAAGGTGCTGCTGCACCCAAGCTTCGGGGAGCTCCCTCAGTGGGCTGTCGTCGgtaagcaaggggaaatcttggcgatgcaatataatactcaaaattcctcctctgaaacctgtagctttcag

- - - - - - TGCTGC
- - - - - -  GCTGCT
- - - - - - -  TGCTGC
- - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - GGAGCT