Sequence
atgc intronic sequence ATGC exonic sequence...gcctgctataacttcagtatctggcaaaaactatcttcgtttcggcgtgtgctagacacatcgacatctcaaaacgttaacgagcgactctttttcgcagGCCAATACGCTGCGGTTGTACCTCACCTGCATCCGGAACACTCTGGAGGCGGCGATGTGCCTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G112015_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g63090.3 (Oryza sativa), 3'ss of exon 1
gcctgctataacttcagtatctggcaaaaactatcttcgtttcggcgtgtgctagacacatcgacatctcaaaacgttaacgagcgactctttttcgcagGCCAATACGCTGCGGTTGTACCTCACCTGCATCCGGAACACTCTGGAGGCGGCGATGTGCCTCCAG
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------------------------------tcagattatttgtggcgtttgctttggaagtatgggt----gagtgctcatgtgtttgtgctatt-gtaggctaatacgctgcgattgtatctcacttgcataagGAACACTCTGGAGGCTGCCATGTGCCTGCAG
upper sequence: GRMZM2G112015_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g63090.1 (Oryza sativa), 3'ss of exon 1
gcctgctataacttcagtatctggcaaaaactatcttcgtttcggcgtgtgctagacacatcgacatctcaaaacgttaacgagcgactctttttcgcagGCCAATACGCTGCGGTTGTACCTCACCTGCATCCGGAACACTCTGGAGGCGGCGATGTGCCTCCAG
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---gttcgagattgcattttttttttaaaatcagattatttgtggcgtttgctttggaagtatgggt----gagtgctcatgtgtttgtgctatt-gtagGCTAATACGCTGCGATTGTATCTCACTTGCATAAGGAACACTCTGGAGGCTGCCATGTGCCTGCAG
upper sequence: GRMZM2G112015_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g63090.2 (Oryza sativa), 3'ss of exon 1
--gcctg---ctataacttcagtatctggcaaaaactatcttcgtttcggcgtgtgctagacacatcgacatctcaaaacgttaacgagcgactctttttcgcagGCCAATACGCTGCGGTTGTACCTCACCTGCATCCGGAACACTCTGGAGGCGGCGATGTGCCTCCAG
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tcgctttggttcgagattgcattttttttttaaaatcagattatttgtggcgtttgctttggaagtatgggt----gagtgctcatgtgtttgtgctatt-gtagGCTAATACGCTGCGATTGTATCTCACTTGCATAAGGAACACTCTGGAGGCTGCCATGTGCCTGCAG
upper sequence: GRMZM2G112015_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G11740.1 (Glycine max), 3'ss of exon 1
gcctgctataacttcagtatctggcaaaaactatcttcgtttcggcgtgtgctagacacatcgacatctcaaaacgttaacgagcgactctttt-tcgcagGCCAATACGCTGCGGTTGTACCTCACCTGCATCCGGAACACTCTGGAGGCGGCGATGTGCCTCCAG
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gtacgctacgctcttatcaatcccctcaa-tcatcgtatcttc--tttacactaaactc-tgtttgtacaattatataaacacaccgtttttgcgtttcagGCAAATACGTTGCGGTTATACTTGACCTGCATTCGGAACACGCTCGAGGCCGCAATGTGCCTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtgtgctagacacatcgacatctcaaaacgttaacgagcgactctttttcgcagGCCAATACGCTGCGGTTGTACCTCACCTGCATCCGGAACACTCTGGAGGCGGCGATGTGCCTCCAG
cgttaac putative branch site (score: 3)
ctctttttcgc putative PPT
tcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcctgctataacttcagtatctggcaaaaactatcttcgtttcggcgtgtgctagacacatcgacatctcaaaacgttaacgagcgactctttttcgcagGCCAATACGCTGCGGTTGTACCTCACCTGCATCCGGAACACTCTGGAGGCGGCGATGTGCCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG