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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaatctttctgcaagatttctattgtacggttatatcattcaaaggttatcttccattcttttctgttggtaaatagctgggcagctgatggtg...

Basic information

species Zea mays
transcript GRMZM2G060870_T03
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060870_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g40890.1 (Oryza sativa), 5'ss of exon 3
ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaa-tctttctgcaagatttctattgtacggttatatcattcaaaggttatcttccattcttttctgttggtaaatagctgggcagctgatggtg
||||||||||||||||||||||| |||| |||| ||| ||  | || |||||||| |||||||   | |||||||| ||      |  ||      | |  ||||    | || |||  |  |    |  | ||   || ||  |     ||||   
ATAAATTTGGAGCTGCTATGGCACTTGTGAAGAGTGACATTGGTGGTAATATCACGgtaagcatcctttttctgcatgacactgttaataatacattgtgtttcattcctcattttcattagtaaatttctagtgt-tatctatgtgatagatgcat
















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|211301820|gb|FK983372.1|FK983372
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACTTGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211377987|gb|FK983378.1|FK983378
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211301817|gb|FK983369.1|FK983369
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACTTGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211301814|gb|FK983366.1|FK983366
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACA
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACA
EST: gi|211301815|gb|FK983367.1|FK983367
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACTTGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211301822|gb|FK983374.1|FK983374
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCGAAGTATGGACACTTGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211377989|gb|FK983380.1|FK983380
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCGAAGTATGGACACTTGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211301812|gb|FK983364.1|FK983364
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGNTGGAAAACAAGNATTCTTCAGATCCATCAAAGTATGGACACATG
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATG
EST: gi|211301818|gb|FK983370.1|FK983370
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211377986|gb|FK983377.1|FK983377
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACTTGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC
EST: gi|211453296|gb|FL230458.1|FL230458
EST:     TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACA                         AGGCTGGAAAACAAGTATTCTTCAGATCCATCGAAGTATGGACACTTGTAC
genomic: TTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaat ... cttctgtcagAGGCTGGAAAACAAGTATTCTTCAGATCCATCAAAGTATGGACACATGTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAAATTTGGAGCTGCTATGGCAATTGTAAAGAATGATATCAGCGGCAATATCACAgtaagcaaatctttctgcaagatttctattgtacggttatatcattcaaaggttatcttccattcttttctgttggtaaatagctgggcagctgatggtg

- - - TTGGAG
- - - - GGAGCT
- - - - - AGCTGC
- - - - -  GCTGCT
- - - - - - - - - - - - - - AAAGAA