Sequence
atgc intronic sequence ATGC exonic sequencegttcatatggagctatttatctagcgtcgcttctttgtttccttccattatttgatggtctatttacacacacatatgtatatatgcatgcactgcagTGTGCTTGGATGGAAGCCCGCCGGGCTACCACTTGCAGAGAGGCTTCGGCTCCGGATCCCACAGCTGGATCGTCTATCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G329002_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g66830.1 (Oryza sativa), 3'ss of exon 1
-----gttcatatggagctatttatctagcgtcgcttctttgtttccttccattatttgatggtctatttacacacacatatgtatatatgcatgcactgcagTGTGCTTGGATGGAAGCCCGCCGGGCTACCACTTGCAGAGAGGCTTCGGCTCCGGATCCCACAGCTGGATCGTCTATCTTCAG
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gtatatcttgcctgcacctgc--agtgaacttcaggttcttgaatctttgatgggcatcaagttctcctgaactcaagaactgtgttgttgcatgc-ttgcagTGTGCTTGGATGGGAGCCCGCCGGGGTACCACCTGCAGAGAGGCTTCGGCTCCGGTGAGCACAGCTGGCTCGTCTTTCTTGAG
upper sequence: GRMZM2G329002_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g66850.1 (Oryza sativa), 3'ss of exon 1
-------------------------------------------gttcatatggagctatttatctagcgtcgcttctttgtttcctt-ccattatttgatgg---tctatttacacacacatatg---tatatatgcatgcac---tgcagTGTGCTTGGATGGAAGCCCGCCGGGCTACCACTTGCAGAGAGGCTTCGGCTCCGGATCCCACAGCTGGATCGTCTATCTTCAG
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gtatccatccatccatccatccaactagctagtagtagctactgctgctatcctgg-agtgatcatgaactggttcttgtcttcttgatcatgacatgaacgaactcaactcatcgtgccatatgaattgtgtttgtttgcattcttgcagTGTGCTTGGATGGGAGCCCGCCGGGCTACCACCTGCAGAGAGGCTTCGGCTCTGGAGAGCACAGCTGGTTTATCCATCTTCAG
upper sequence: GRMZM2G329002_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g66840.1 (Oryza sativa), 3'ss of exon 1
--gttcatatggagctat-ttatctagcgt-cgcttctttgtttccttccattatttgatggtctatttacacacacata-tgtatatatgcatgcactgcagTGTGCTTGGATGGAAGCCCGCCGGGCTACCACTTGCAGAGAGGCTTCGGCTCCGGATCCCACAGCTGGATCGTCTATCTTCAG
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ttaatcgaattataccatgttaactcaaatacgctttcgcttgaaccttgatagcatca-agtcctcctgaactcatgaactgtgtgt-tgcatgc-ttgcagTGTGCTTGGATGGGAGCCCACCGGGCTATCACCTGCAGAGAGGCTTTGGCTCCGGTGAACACAGCTGGCTCATCTATCTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccattatttgatggtctatttacacacacatatgtatatatgcatgcactgcagTGTGCTTGGATGGAAGCCCGCCGGGCTACCACTTGCAGAGAGGCTTCGGCTCCGGATCCCACAGCTGGATCGTCTATCTTCAG
atttgat putative branch site (score: 5)
acatatgtatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcatatggagctatttatctagcgtcgcttctttgtttccttccattatttgatggtctatttacacacacatatgtatatatgcatgcactgcagTGTGCTTGGATGGAAGCCCGCCGGGCTACCACTTGCAGAGAGGCTTCGGCTCCGGATCCCACAGCTGGATCGTCTATCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA