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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTTCTACAAGCAGGCAAAGAAGACAAACCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAGgtggtcaatgctgttttttttgagatcttaatcttaattattgttaggccttatcatctcttttcatctgattaaattctcagccagtttttctattcttttttctttcag

Basic information

species Zea mays
transcript GRMZM2G387076_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G387076_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 6
ATGTTCTACAAGCAGGCAAAGAAGACAAACCAATGCTGCACAATACTGTAAATTTTGG-CTCTTCACTCAT--GGTTGCAAGgt---ggtcaatgctgttttt---tttgagatcttaatcttaat-tattgttaggccttatc---atctcttttcatctgattaaattctcagccagt-------ttttctattctttttt------ctttcag
||||||||||||||||||||||| |||||||||||||| || ||||| | || ||||| || | |  || |   | || |   |   ||| |||  || || |     | ||| |  | | ||  | ||||     |  | ||     ||  ||  | |   || || ||| |     ||        || | |  |||||||       ||||||
ATGTTCTACAAGCAGGCAAAGAAAACAAACCAATGCTGTACTATACTCTGAAGTTTGGACTTTCCTGTCCTTAAGATGAAGACTCCAGgttaattttgcttatggacataagaacccactttttctgtatttactagtttcatttaggtccgttcccgtaaaataaatttcaccatatgtatgacttcttaccacacttttttgcccccttttcag
















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|74235349|gb|DT643263.1|DT643263
EST:     CAATGCTGCACAATACTGTAAAATTTTGGCTCTTCACTCATGGTTGCAAG                         AAACAAAAAACGGTCGATATCGTGCTAATTTATTTTACTGTAAGTTAAGTC
genomic: CAATGCTGCACAATACTGTAAA-TTTTGGCTCTTCACTCATGGTTGCAAGgtggtcaatg ... tttctttcagAAACAAAAA-CGGTCGATATCGTGCTAATTTATTT-ACTGTAAGTTAAGTC
EST: gi|211460687|gb|FL127589.1|FL127589
EST:     CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAG                         ARACAAAAACGGTCGATATCGTGCTAATTTATTTACTGTAAGTKAAGTCGC
genomic: CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAGgtggtcaatg ... tttctttcagAAACAAAAACGGTCGATATCGTGCTAATTTATTTACTGTAAGTTAAGTCGC
EST: gi|60354098|gb|DN221071.1|DN221071
EST:     CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAG                         AAACAAAAACGGTCGATATCGTGC
genomic: CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAGgtggtcaatg ... tttctttcagAAACAAAAACGGTCGATATCGTGC
EST: gi|149057998|gb|EE156679.2|EE156679
EST:     CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAG                         AAACAAAAACGGTCGATATCGTGCTAATTTATTTACTGTAAGTTAAGTCGC
genomic: CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAGgtggtcaatg ... tttctttcagAAACAAAAACGGTCGATATCGTGCTAATTTATTTACTGTAAGTTAAGTCGC
EST: gi|44681914|gb|CK786962.1|CK786962
EST:     CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAG                         AAACAAAAACGGTCGATATCGTGCTAATTTATTTACTGTAAGTTAAGTCAC
genomic: CCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAGgtggtcaatg ... tttctttcagAAACAAAAACGGTCGATATCGTGCTAATTTATTTACTGTAAGTTAAGTCGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTTCTACAAGCAGGCAAAGAAGACAAACCAATGCTGCACAATACTGTAAATTTTGGCTCTTCACTCATGGTTGCAAGgtggtcaatgctgttttttttgagatcttaatcttaattattgttaggccttatcatctcttttcatctgattaaattctcagccagtttttctattcttttttctttcag

- - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - -  TGCTGC