Sequence
atgc intronic sequence ATGC exonic sequence...ttcataccttatgttctcgtattttgctatagtagatgcaaaaggagtatggggctggattaaaaaaaactgatggtttaaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G137468_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g30900.1 (Oryza sativa), 3'ss of exon 2
ttcataccttatgttctcgtattttgctatagtagatgcaaaaggagtatggggctggattaaaaaaaac-tgatggtttaaatgtgattgt--ttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACTTGG
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---aaaaattaagagcaatatgattgaagcaccaaaacttcttctaaattaaaattagtttaaaagaagtatgatgattgaagtccctttttcgtcattgcagGTTGTGGCTATAAAGCAGCTTAATAGAGATGGGCTTCAAGGAAACAGAGAATTTCTAGTGGAAGTTCTAATGCTCAGTTTGTTACATCATCAAAATCTTG
upper sequence: GRMZM2G137468_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT5G13160.1 (Arabidopsis thaliana), 3'ss of exon 2
-ttcataccttatgt-tctcgtattttgctatagtagatgcaaaaggagtatggggctggattaaaaaaaactgatggtttaaatgtgatt--gtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACTTGG
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atccatgtcacctgtgtgtttcagatcacttgtttagctcgatga----tttcgcaatacataatgttgtacctctgatctatttttttttcaatcattttcagGTTGTTGCTGTTAAACAACTAGACAGGAATGGTCTACAAGGTAACAGAGAATTTCTGGTAGAGGTTCTTATGCTCAGTCTTCTTCATCATCCCAACTTAG
upper sequence: GRMZM2G137468_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ25419 (Selaginella moellendorffii), 3'ss of exon 2
ttcataccttatgttctcg-tattttgctatagtagatgcaaaaggagtatggggctggattaaaaaaaactgatggtttaaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACTTGG
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-----gttcggtgttcttgctctcttgcaaaaccagttttttctttcttgtttggttttgttctaacaagttttcctcct--------tccaacactgcagGTTGTGGCAGTGAAGCAGCTGGATAGAAACGGACTTCAAGGAAACAGAGAATTCTTGGTGGAAGTTCTGATGCTCAGCTTGCTTCACCATCCAAATCTCG
upper sequence: GRMZM2G137468_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ23436 (Selaginella moellendorffii), 3'ss of exon 2
ttcataccttatgttctcgtattttgctatagtagatgcaaaaggagtatggggctggattaaaaaaaactgatggtttaaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACTTGG
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------------------gttcggtgttcttgctctcttgcaagttttttctttcttgtttggttttgtctaacaaattttcctccttccaacactgcagGTTGTGGCAGTGAAGCAGCTGGATAGAAACGGACTTCAAGGAAACAGAGAATTCTTGGTGGAAGTTCTGATGCTCAGCTTGCTTCACCATCCAAATCTCGMapped 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|211477955|gb|FL115135.1|FL115135EST: AAGGAGGTTTTGGACGTGTTTACAAGGGCCGCCTCGAGAGCACAGGCCAG GTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAA
genomic: AAGGAGGTTTTGGACGTGTTTACAAGGGCCGCCTCGAGAGCACAGGCCAGgtaacttttg ... tttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAA
EST:
gi|87156740|gb|DY401529.1|DY401529EST: CGAGAGCACAGGCCAG GTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAA
genomic: CGAGAGCACAGGCCAGgtaacttttg ... tttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtatggggctggattaaaaaaaactgatggtttaaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACTTGG
aactgat putative branch site (score: 3)
attaaaaaaaactgat TA-rich tract
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
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ttcataccttatgttctcgtattttgctatagtagatgcaaaaggagtatggggctggattaaaaaaaactgatggtttaaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT