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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGAAAATTCAAGCTTACCCGAGGACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaagcttccatattcgtttaggtagagcacttctcaccataagcttagcattcaattgttaaagtatctgtgtttttttgtcacaatgagtact...

Basic information

species Zea mays
transcript GRMZM5G868168_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G868168_T04 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g46740.1 (Oryza sativa), 5'ss of exon 7
ATATGAAAATTCAAGCTTACCCGAGGACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaagcttccatattcgtttaggtagagcacttctcaccataagcttagcattcaattgttaaagtatctgtgtttttttgtcacaatgagtact----
|||||||||||| ||| | || |||||  | || | || | | ||||||||||| ||||| |||||||| ||||| |||||||||| ||   | ||    |    |    |   || | ||||   |   |   ||| | ||  | || | ||         || ||   | | ||    
ATATGAAAATTCCAGCCTGCCTGAGGAGAGAATAGCTACACTAGTGACAGAAACATTGGCCGCAGTAGGCCTAAAAgtaagtcaagttttttttttttcatgttgaagttaaaactaagcatagaatagtc--ccaaattttggattagcggtaagcca--atcgcaggcaatgctttta
















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|31350150|gb|CD434507.1|CD434507
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
EST: gi|154130463|gb|EC872173.2|EC872173
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
EST: gi|148986921|gb|EE030732.2|EE030732
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCT
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCT
EST: gi|78103984|gb|DV522402.1|DV522402
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAA-GCGT
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
EST: gi|88757983|gb|DY542124.1|DY542124
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
EST: gi|76931706|gb|DV172823.1|DV172823
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTG
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTG
EST: gi|149004790|gb|EE039293.2|EE039293
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
EST: gi|78120174|gb|DV538558.1|DV538558
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCTGGTGGAATGAAAAAGCGT
EST: gi|33467141|gb|CF244190.1|CF244190
EST:     ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAG                         GGTGTTGAAGATCGTATGCCATCCGAGTTGTCTG
genomic: ACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaag ... gtgtgtgtagGGTGTTGAAGATCGTATGCCATCCGAGTTGTCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATGAAAATTCAAGCTTACCCGAGGACCGCATTGGTAAATTGGTGACAGAAACTTTGGCTGCAGTAGGACTAAAGgtaagtcaagcttccatattcgtttaggtagagcacttctcaccataagcttagcattcaattgttaaagtatctgtgtttttttgtcacaatgagtact

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG