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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTTGTTCACAAGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttag

Basic information

species Zea mays
transcript GRMZM2G443985_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G443985_T04 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 5'ss of exon 4
ATTGTTGTTCACAAGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttag
    |||||||||||||||| || ||||| ||||| |||||||||||||| ||||| || | ||||||| ||| || |     |||  ||| |  || | |||||    | | |||| ||       |  || ||  |     |     ||| |  | |||| | || |                     
GCCATTGTTCACAAGGATGGCCCTAGAGGCAACCACTTCCGTCGTGCTGGGCCTCGACAGAGGgtatat-aacattgta----ttcatatacta-acacaaataa----gttggaaaaaa-------actattcttttt----ttctcacttcatattattcctggtcag--------------------
















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|148972520|gb|EE023481.2|EE023481
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|148982505|gb|EE028350.2|EE028350
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|76019410|gb|DT946580.1|DT946580
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|148949820|gb|EC895309.2|EC895309
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|74240350|gb|DT648264.1|DT648264
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGA
EST: gi|149014989|gb|EE044730.2|EE044730
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|148962197|gb|EE013012.2|EE013012
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|148958430|gb|EC904664.2|EC904664
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|211132967|gb|FL170872.1|FL170872
EST:     AGGATGGGCCCAGAGGGAACCACTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCAGATGAGGTCCATGCATGCAT
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCAT
EST: gi|148936583|gb|EC880704.2|EC880704
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|211132977|gb|FL170882.1|FL170882
EST:     AGGATGGGCCCAGAGGGAACCACTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCAGATGAGGTCCATGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|149071167|gb|EE159563.2|EE159563
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|13557855|gb|BG549211.1|BG549211
EST:     CCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: CCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|76016086|gb|DT943256.1|DT943256
EST:     AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAG                         GTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
genomic: AGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGA
EST: gi|211132971|gb|FL170876.1|FL170876
EST:     GGATGGGCCCAGAAGG-AACCACTTCCGTCGTGCTGGACCTCGNCAAAAG                         GTATATTTTGAACCAGATGAGGTCCATGCATGCATTGTCACTTG
genomic: GGATGGGCCCAGA-GGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaac ... tcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGTTGTTCACAAGGATGGGCCCAGAGGTAACCATTTCCGTCGTGCTGGACCTCGCCAAAAGgtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaaataagggggagatgatactactaaacgtgtatgctttacttcattcttcgtaacctcgtgcttgtcttgtttag

- - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - -  GCTGGA