Sequence
atgc intronic sequence ATGC exonic sequencegtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 4
-------------------------------------------gtaggttgaattttc-caacttggctatacattttatgagca---atgttgttgtccattgttaaca-gtgaattacctcttactgtaattggtgtggtttaatgaaat-----atgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
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gttgcttcacctttttgaacttgaccctatatatgcctttcccctatcttttgtttccacaaaagatcttaatacaaaccaaacattcatttcgcaatttatattttgtatgtatagtatctttttcatccatctgtgttgtttaacaagatgaacgatggcatttttcagGTTTATCCGATGTATAAGGCTTTCATTGAGCCAGACTTGCAGACAGCACATATAAAAATAATCAACAAGTTCAACCCATTCTCAGGGTTCCAAAATCCTA
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 4
gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaaca-gtgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
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---------------------gttcatacgttt-ataattcctttggtctttttatacagatttggaaaatatgtgtttccagaagtgcttaagtttaa---------acatttt-cagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACACATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 4
gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctctta-ctgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
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---------------------gttcatac-ttttataa------ttcctttcatctttttatacagatttagaaaatatctgtatttctagaag--tgcttaagtttaaacattttcagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT1G73980.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------------------gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacag------tgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
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gttttcatgctagtctttgctatcttttattttttagcccagattaatcacccttgctgtcatgcctgctgtttggagttgct---tcaaatatggaaaaaacatgaaacgatgtctcctactcctactggatgttttgagtttttttttacagtaa--aattttgcttat--gtttttttctccaaccagGTTTATCCTATGTACAAGGCGTTTATTGAACCTGATCTGAAGACAGCTCAGATTAAGATCCTTAATAAGTTCAACCCATTCAGTGGCTTTCAGAACCCAA
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 3
gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctct-tactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
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gtgttttcacttatactatgttagaaagttttctttacttaatga-actgtt--atggtagcccttaattattcatataaagcatttattgtacttctcatcagctttcttttacacagGTATATCCTATGTACAAGGCTTTTATTGAGCCAGATCTACAAACAGCACATATAAAAATCATCAACAAATTCAATCCATTCACTGGATTTCAGAACCCCA
upper sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 3
gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
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---------gttctttcactt------accctctgctaaatacgccccttaagaattttgac--tggattttgcttttcaagaattt------ctcaact--acattcttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
catttttc CT-rich tract
tttaatgaaatatgac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA