Sequence
atgc intronic sequence ATGC exonic sequence...atgcatgtatttaagcattttacagatccagctgtcatttcatgtaaataaatatgactaccgatttggtttctgatgtttcatctatctatttgcttagGTACTATGGACGCATGGATGTTACTGTGGCGTTTTCTGCATTCGTCATTGCAATAGCATTGCTTTTACAAAGAGGAAACCCTCGTTTTGCTCAGCTAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G053711_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g03460.1 (Oryza sativa), 3'ss of exon 1
----atgcatgtatttaagcattttac-agatcca-gctgtcatttcatgtaaataaatatgactaccgatttggtttctgatgtttcatctatctatttgcttagGTACTATGGACGCATGGATGTTACTGTGGCGTTTTCTGCATTCGTCATTGCAATAGCATTGCTTTTACAAAGAGGAAACCCTCGTTTTGCTCAGCTAACT
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tggagggagtattatttggtacatgactatatttaagttgtcattttctgtaaatg----tgacaatt--ttctgaacctgatgtttcatctgtctatttgcttagGTACTATGGGCATATGGATGTTACCGTGACGTTTTCTGCATTCCTTATTGCGATATCATTGTTATTGCAAAGAGGAAATCCTCGTTTTGCACAGCTGACT
upper sequence: GRMZM2G053711_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT2G45150.2 (Arabidopsis thaliana), 3'ss of exon 2
atgcatgtatttaag-cattttacagatccagctgtcatttcatgtaaataaatatgactaccgatttggtttctgatgtttcatctatctatttgcttagGTACTATGGACGCATGGATGTTACTGTGGCGTTTTCTGCATTCGTCATTGCAATAGCATTGCTTTTACAAAGAGGAAACCCTCGTTTTGCTCAGCTAACT
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gtgagtttagctaaaacgctctacgtcgaagcttgtcttgttatccatgtga-tatgacttctccttga----ctgattttatg---aaatatctttttagGTACTTTGGTAACATTGATATATTGGTGACATCTGCAGCATTTGTTGTTGCAATAGCATTGTTAGTACAAAGAGGATCCCCACGTTTTGCTCAGCTGAGT
upper sequence: GRMZM2G053711_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT3G60620.1 (Arabidopsis thaliana), 3'ss of exon 2
atgcatgtatttaagcattttacagatccagctgtcatttcatgtaaataaatatgactaccgatttggtttctgatgtttcatctatctatttgcttagGTACTATGGACGCATGGATGTTACTGTGGCGTTTTCTGCATTCGTCATTGCAATAGCATTGCTTTTACAAAGAGGAAACCCTCGTTTTGCTCAGCTAACT
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-----------------gtgagtagtttcagtcagtaaacaccgcaaaagcctgtgatcttttctcttgttctgaataaaggttttatct-tttttgtagGTATTTTGGTCATATAGATATCTCGATAACTTCAGCGGCGTTTGTTGTTGCAATGGCATTGTTGTTACAGAGAGGAAACCCGCGTTTTTCTCAGCTGAGT
upper sequence: GRMZM2G053711_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv15s0048g00240.t01 (Vitis vinifera), 3'ss of exon 2
---atgcatgtatttaagcattttacagatccagctgtcat-ttcatgtaaataaatatgactaccgatttggtttctgatgtttcatctatctatttgcttagGTACTATGGACGCATGGATGTTACTGTGGCGTTTTCTGCATTCGTCATTGCAATAGCATTGCTTTTACAAAGAGGAAACCCTCGTTTTGCTCAGCTAACT
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ttcatctatgt-tttgcgcatat-ataactctaggtttgagactcatttatgttggctt--ctagtttctttatttctgattactgtttcacttgtatggtcagGTACTTTGGTAACATTGATGTTTCCGTGACATCTGCTGCCTTTTTTGTTGCTATGGCATTGCTTTTGCAGAGGGGAAATCCTCGTTTTGCTCAGCTTAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaataaatatgactaccgatttggtttctgatgtttcatctatctatttgcttagGTACTATGGACGCATGGATGTTACTGTGGCGTTTTCTGCATTCGTCATTGCAATAGCATTGCTTTTACAAAGAGGAAACCCTCGTTTTGCTCAGCTAACT
ttctgat putative branch site (score: 3)
tctattt putative PPT
tatctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgcatgtatttaagcattttacagatccagctgtcatttcatgtaaataaatatgactaccgatttggtttctgatgtttcatctatctatttgcttagGTACTATGGACGCATGGATGTTACTGTGGCGTTTTCTGCATTCGTCATTGCAATAGCATTGCTTTTACAAAGAGGAAACCCTCGTTTTGCTCAGCTAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT