Sequence
atgc intronic sequence ATGC exonic sequencegtgagttgtgcagtttttcaacttctatacaccattttggtaccataatggaggggggggttgaaatatctttgtttattctgatttttgagGCAATGTTATCTGCAGAGGGATGGTCAATATCGCGTTGATGCTCAAGCCACTCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGTTACTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G060611_T03 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os05g44360.1 (Oryza sativa), 3'ss of exon 19
gtgagttgtgcagtttttcaac-------ttctatacaccattttggtac-cataatggaggggggggttg-------aaatat-----ctttgtt---tattctgatttttgagGCAATGTTATCTGCAGAGGGATGGTCAATATCGCGTTGATGCTCAAGCCACTCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGTTACTACAG
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gtgagttgtgaatctttttagggatggtgccttacacatcattttggtgggcataaggaagaatagaaatagtgaaacaaatatatgagcttgattcactattctgatttctcatgttattttgttgccagAGGGATGGTAACTATCGTGTTGATGCTCAAGGCACCCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGCTATTACAG
upper sequence: GRMZM2G060611_T03 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os05g44360.2 (Oryza sativa), 3'ss of exon 14
gtgagttgtgcagtttttcaa-------cttctatacaccattttggtac-cataatggaggggggggttg-------aaatat-----ctttgtt---tattctgatttttgagGCAATGTTATCTGCAGAGGGATGGTCAATATCGCGTTGATGCTCAAGCCACTCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGTTACTACAG--------------------
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gtgagttgtgaatctttttagggatggtgccttacacatcattttggtgggcataaggaagaatagaaatagtgaaacaaatatatgagcttgattcactattctgatttctcatgttattttgttgccagAGGGATGGTAACTATCGTGTTGATGCTCAAGGCACCCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGCTATTACAGGTTTGACAAACAGAATTCAA
upper sequence: GRMZM2G060611_T03 (Zea mays), 3'ss of exon 19
lower sequence: Vv11s0016g01590.t01 (Vitis vinifera), 3'ss of exon 3
gtgagttgtgcagtttttcaacttctatacaccattttggtaccataatggaggggggggttgaaatatctttgtttattctgatttttgagGCAATGTTATCTGCA-GAGGGATGGTCAATATCGCGTTGATGCTCAAGCCACTCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGTTACTACAG
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-taagaaaatcatagatgataatgttttctactattttt-tattgtgtttgatcaattatattaaat---tttaacta--cttgtctcttatcc--tgctgtctaaaagAGAGATGGACAGTACCAGATTGATTCTCAAGCCACTCCTACCATGCTAAATTGCCTCATGTACAAACTGTCATATTTCAG
upper sequence: GRMZM2G060611_T03 (Zea mays), 3'ss of exon 19
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 19
gtgagttgtgcagtttttcaacttctatacaccattttggtaccataatggaggggggggttgaaatatctttgtttattctgatttttgagGCAATGTTATCTGCAGAGGGATGGTCAATATCGCGTTGATGCTCAAGCCACTCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGTTACTACAG
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atgtggctaagaaaatgataatgttt-tctactattttt-tattttgtttgatcaattatattaaat---tttaactact-tgtctcttatcctgctgtt--taaaagAGAGATGGACAGTACCGGATTGATTCTCAAGCCACTCCTACCATGCTAAATTGCCTCATGTACAAACTGTCATATTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtaccataatggaggggggggttgaaatatctttgtttattctgatttttgagGCAATGTTATCTGCAGAGGGATGGTCAATATCGCGTTGATGCTCAAGCCACTCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGTTACTACAG
ttctgat putative branch site (score: 3)
ttttt CT-rich tract
aaatatctttgtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttgtgcagtttttcaacttctatacaccattttggtaccataatggaggggggggttgaaatatctttgtttattctgatttttgagGCAATGTTATCTGCAGAGGGATGGTCAATATCGCGTTGATGCTCAAGCCACTCCAACTATGCTGAATTGCCTCATGTACAAGCTTTGTTACTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT