Sequence
atgc intronic sequence ATGC exonic sequenceAGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgatgggtttatttatgaatgaacacag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G840582_T03 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os07g01760.1 (Oryza sativa), 5'ss of exon 11
AGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgatgggtttatttatgaatgaacacag---------------
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AAAGGGCTGGCAAAGCGGCCGATGTTTTCTACTGCCTCAAGCTTCTTGAAGCAACTGGAATATCCACTGTTCCAGGGTCAGGTTTCGGACAAAAAGAAGGgtaggtgtttcccttacat--atacatatgtatcttcaaa-gtttcataaacatcagagatctctcaactagacatgactcaggagtacctgaatttatcctt
upper sequence: GRMZM5G840582_T03 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA02G04320.1 (Glycine max), 5'ss of exon 14
AGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgat-----gggtttatt--tatgaatga-acacag------
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AACAGGCTGGAAAGGTTCCAGATGTTTACTACTGCCTCAAGCTTTTGGAAGCCACTGGCATATCCACTGTTCCTGGTTCAGGATTTGGTCAGAAAGAAGGgtacaaacttatacatttattctcatgt-ttatcccctttt-cttttcctttctttagagtgattccacatgcctattcctatggttttcatgcaatgagaa
upper sequence: GRMZM5G840582_T03 (Zea mays), 5'ss of exon 12
lower sequence: AT1G23310.2 (Arabidopsis thaliana), 5'ss of exon 13
AGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgatgggtttatttatgaatgaacacag--------------------------------
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AACAAGCTGGAAAAGTGCCAGACGTTTTCTACTGTCTCAAGCTCTTAGAAGCCACAGGAATCTCCACAGTACCTGGCTCTGGATTTGGACAGAAAGAAGGgtaa------agaatctgctactactgtttctttcttgctcatctgatctc-ttcttatgaactcattccacttgtggattttgacagtgtgttccatctgaggacaacaatcctgccag
upper sequence: GRMZM5G840582_T03 (Zea mays), 5'ss of exon 12
lower sequence: AT1G23310.1 (Arabidopsis thaliana), 5'ss of exon 13
AGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgatgggtttatttatgaatgaacacag
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AACAAGCTGGAAAAGTGCCAGACGTTTTCTACTGTCTCAAGCTCTTAGAAGCCACAGGAATCTCCACAGTACCTGGCTCTGGATTTGGACAGAAAGAAGGgtaa------agaatctgctactactgtttctttcttgctcatctgatctc-ttcttatgaactcattccacttgtggattttgacag
upper sequence: GRMZM5G840582_T03 (Zea mays), 5'ss of exon 12
lower sequence: Vv00s0225g00130.t01 (Vitis vinifera), 5'ss of exon 13
AGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgta-tgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgatgggtttatttatgaatgaacacag------------
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AAAAGGCTGGTAAAGTGGCTGATGTTTTCTACTGCCTCAAGCTCTTGGAAGCCACTGGAATTTCCACTGTCCCTGGTTCAGGATTTGGACAGAAAGAAGGgtaattttttcccttgtttcttccgttgtaatttcaacaactgtcttctcattcctttca-caatgtttctacttgcgtgaaacctttcatgttactgata
upper sequence: GRMZM5G840582_T03 (Zea mays), 5'ss of exon 12
lower sequence: EFJ30498 (Selaginella moellendorffii), 5'ss of exon 12
AGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgatgggtttatttatgaatgaacacag
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CTCAGGCAGGAAAAGCAGCAGATGTTTTCTACTGCCTCAAGCTCTTGGAGGCGACGGGAATTTCCACGGTCCCCGGCTCTGGATTCGGCCAAAAAGAAGGgtgag---------aactttggaaactc-ttttctctcaacacaagctttcgtttttgcgtag-------------------------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|32850940|gb|CD990621.1|CD990621EST: GCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGG GGTGTTCCACCTTCGGACAACTATCCTTCCAGCCGAGGAAGACTTCCCTAC
genomic: GCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtat ... atgaacacagGGTGTTCCACCTTCGGACAACTATCCTTCCAGCCGAGGAAGACTTCCCTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGAGCCGGCAAAGCAGCAGACGTTTTCTACTGCCTCAAGCTCCTGGAGGCAACGGGGATTTCCACTGTTCCGGGATCTGGTTTTGGGCAGAAGGAAGGgtatgtgtatatatgatgatgataatgagttatctgtgagtgctggatgaagttttgaagtgatgggtttatttatgaatgaacacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA