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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCGCCATTGGAGCCGCCAAAGGTTTGGCTTTCCTCCACGACGCTGCCAAACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataatgagaccaggctgcgcgcgcattcgctccatgcggctttccctgactcgcgccttcattcag

Basic information

species Zea mays
transcript GRMZM2G110968_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110968_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os10g25550.1 (Oryza sativa), 5'ss of exon 3
GATCGCCATTGGAGCCGCCAAAGGTTTGGCTTTCCTCCACGACGCTGCCAAACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaa-----taatgagaccaggctgcgcgcgcattcgctcc-atgcggctttccctga----ctcgcgccttcattcag-------------------
||||||||||||||| |||| ||||||||| |||||||| || |||||||| ||||||||||| |||||||||||||| ||||||||||| ||  |||||||| |      ||   | |  ||  |       |||| | |   || |  | | |  | |     ||        | | |                    
GATCGCCATTGGAGCGGCCAGAGGTTTGGCCTTCCTCCATGAAGCTGCCAAGCCCGTCATCTATCGCGACTTCAAGACCTCCAACATCCTACTCAACTCGgtatacatatctatctatatgagcttatttatacattggtttttatccaacatccttttaatatttcaaaatagtacttatatatattgtttttatctat
















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|76020783|gb|DT947953.1|DT947953
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
EST: gi|91049702|gb|EB160120.1|EB160120
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
EST: gi|78089533|gb|DV517907.1|DV517907
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
EST: gi|91054554|gb|EB164972.1|EB164972
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGGCGAA-CTGTCGGATTTCGGGCT
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGG-CGAAGCTGTCGGATTTCGGGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATCGCCATTGGAGCCGCCAAAGGTTTGGCTTTCCTCCACGACGCTGCCAAACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataatgagaccaggctgcgcgcgcattcgctccatgcggctttccctgactcgcgccttcattcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA