Sequence
atgc intronic sequence ATGC exonic sequencegtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G181151_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 11
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
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gtactttcttttctgttcttttattgagt-agcaaagattttcttggtaagagtaactggc------tgcttcatactccacctcaa-------tattatgacacatg-aatgtaacttaatagatcttc-tatattttttact---------------ctacctcaatattttcttgttac------tttcagATATACCCACCCATCAATGTCTTGCCATCTCTCTCTCGATTGATGAAG----------------------------------------------------
upper sequence: GRMZM2G181151_T03 (Zea mays), 3'ss of exon 11
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 3'ss of exon 10
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatat-agaatatgaagtatttgtttattttttactacct----tgatagcttatctgtgttgatgtgatcacattttattttattt---cagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
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---------------------------------------------------------gtattggttctaacttcgagccaggcttaacaatactcatattcttgcatccagtttcatcataggagatacttcttcccatttgatcgttagtgatggaaggttgtaagcctttagttgatctaatgtaatgatgatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG----------------------------------------------------
upper sequence: GRMZM2G181151_T03 (Zea mays), 3'ss of exon 11
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 10
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
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----------------------------------------------------------------------------------------------------------------------------------gtttgtgct--ggtattttg-cagtgtacatgtaacactgctctt-tggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG----------------------------------------------------
upper sequence: GRMZM2G181151_T03 (Zea mays), 3'ss of exon 11
lower sequence: EFJ11911 (Selaginella moellendorffii), 3'ss of exon 10
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
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----------------------------------------------------------------------------------------------------------------------------------gtttgtgct--ggtattttg-cagtgtacatgtaacact-tctctttggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG---------------------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
tgttgat putative branch site (score: 4)
ttttattttatttc putative PPT
tgatcacattttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG