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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGAAGAAATCGACGTCAGCCATCCTGATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttgtttatgctgtaacccacaggtcacaccgccacagacatcttgctagcaaaagttgtggatcaccccaaaaagcatggctgtggatatttt...

Basic information

species Zea mays
transcript GRMZM2G170291_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G170291_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os12g18200.1 (Oryza sativa), 5'ss of exon 5
TCATGAAGAAATCGACGTCAGCCATCCTGATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttgtttat--gctgtaacccacaggtcaca--ccgccacagacatcttgctagcaaaagttgtggatcaccccaaaaagcatggctgtggatatttt
||||||||||||||| || |||||||||||||| |||||||| ||||| || |||||||||| ||| || ||||||||||||| |||  | ||     |  |  |  |   | |||     | |        ||  ||       | |    | ||  |  |     ||  ||| |  |    
TCATGAAGAAATCGATGTTAGCCATCCTGATTTTTTTAGCAGTGCTAAACTCAATGGATACATCCCTCCAAATAAAGAGgtaacattactctactgattcaagtcttctatttacaagtgactaggagtgatttattacttttcatggctttttacaactcaggaactgtatgtagtca----
















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|91873536|gb|EB403493.1|EB403493
EST:     CAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: CAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|76021195|gb|DT948365.1|DT948365
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|91872354|gb|EB402311.1|EB402311
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|76016190|gb|DT943360.1|DT943360
EST:     ATTTCTTTAGCAGCGCTAAGCTGAAGGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|50332549|gb|CO527675.1|CO527675
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|76014034|gb|DT941204.1|DT941204
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|76010860|gb|DT938030.1|DT938030
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|211321948|gb|FK966254.1|FK966254
EST:     ATTTC-TTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|74236587|gb|DT644501.1|DT644501
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|78105399|gb|DV523817.1|DV523817
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|60351954|gb|DN218927.1|DN218927
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|18661354|gb|BM501369.1|BM501369
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|60356095|gb|DN223068.1|DN223068
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|211321950|gb|FK966256.1|FK966256
EST:     ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: ATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
EST: gi|71771441|gb|DR969378.1|DR969378
EST:     CCAATAAAGAG                         GACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC
genomic: CCAATAAAGAGgtaatatttg ... gcacatgcagGACTGTGGACAGCCAGGATTCACCCCAGCAGAGAGACGGCGTTTTGGCAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCATGAAGAAATCGACGTCAGCCATCCTGATTTCTTTAGCAGCGCTAAGCTGAATGGATACACCCCACCCAATAAAGAGgtaatatttgtttatgctgtaacccacaggtcacaccgccacagacatcttgctagcaaaagttgtggatcaccccaaaaagcatggctgtggatatttt

- - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - -  AGCTGA