Sequence
atgc intronic sequence ATGC exonic sequence...tttgctagtttactgaaagaatatgatgtacagtagatgcaaaagacaaatgaagctggattaaaaaagacagacggtttaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G140095_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g30900.1 (Oryza sativa), 3'ss of exon 2
tttgctagtttactgaaag-aatatgat--gtacagtagatgcaaaagacaaatgaagctggattaaaaaagaca-gacggtttaatgtgattgtttgc---tgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACCTGG
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-------aaaaattaagagcaatatgattgaagcaccaaaacttcttctaaattaaaattagtttaaaagaagtatgatgattgaagtccctttttcgtcattgcagGTTGTGGCTATAAAGCAGCTTAATAGAGATGGGCTTCAAGGAAACAGAGAATTTCTAGTGGAAGTTCTAATGCTCAGTTTGTTACATCATCAAAATCTTG
upper sequence: GRMZM2G140095_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT5G13160.1 (Arabidopsis thaliana), 3'ss of exon 2
tttgctagtttactgaaagaatatgatgtacagtagatgcaaaagacaaatgaagctggattaaaaaagacagacggtttaatgtgattgtttgctg--------cagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACCTGG
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-------atccatgtcacctgtgtgtttcagatcacttgttta-gctcgatgatttcgcaatacataatgttgtacctctgatctatttttttttcaatcattttcagGTTGTTGCTGTTAAACAACTAGACAGGAATGGTCTACAAGGTAACAGAGAATTTCTGGTAGAGGTTCTTATGCTCAGTCTTCTTCATCATCCCAACTTAG
upper sequence: GRMZM2G140095_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ25419 (Selaginella moellendorffii), 3'ss of exon 2
tttgctagtttactgaaagaatatgatgtacagtagatgcaaaagacaaatga--agctggattaaaaaagacagacggtttaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACCTGG
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-----------gttcggtgttcttgctctcttgcaaaaccagttttttctttcttgtttggttttgttctaaca---agttttcctccttccaacactgcagGTTGTGGCAGTGAAGCAGCTGGATAGAAACGGACTTCAAGGAAACAGAGAATTCTTGGTGGAAGTTCTGATGCTCAGCTTGCTTCACCATCCAAATCTCG
upper sequence: GRMZM2G140095_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ23436 (Selaginella moellendorffii), 3'ss of exon 2
tttgctagtttactgaaagaatatgatgtaca-gtagatgcaaaagacaaatgaagctggattaaaaaagacagacggtttaatgtgattgtt-tgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACCTGG
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--------------------gttcggtgttcttgctctcttgcaagttttttctttcttgtttggttttgtctaacaaattttcctccttccaacactgcagGTTGTGGCAGTGAAGCAGCTGGATAGAAACGGACTTCAAGGAAACAGAGAATTCTTGGTGGAAGTTCTGATGCTCAGCTTGCTTCACCATCCAAATCTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaatgaagctggattaaaaaagacagacggtttaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACCTGG
gtttaat putative branch site (score: 4)
attaaaaaaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgctagtttactgaaagaatatgatgtacagtagatgcaaaagacaaatgaagctggattaaaaaagacagacggtttaatgtgattgtttgctgcagGTTGTTGCTATAAAGCAGCTTAACAGGGATGGGCTTCAAGGAAACAGAGAATTTCTAGTAGAAGTTCTCATGCTCAGCTTACTACATCATCAAAACCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT