Sequence
atgc intronic sequence ATGC exonic sequence...ggattgaaagaggagtcacatttatttttatctctgtattaatatgtattgtgactagaataccacctttatatctagtggcaactgttgcaatcttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G022090_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g23680.3 (Oryza sativa), 3'ss of exon 4
ggattgaaagag-gagtcacatttatttttatctctgtattaatatgtattgtgactagaat-accacctttatatctagtggcaactgttgcaatcttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
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-ccttaatccactggctcctgcataaacaaaacattctaatagctactggtgcaattagaattagcagctattggtgct-taatatgtatcacaatattcagGTTATGCAACATGGACATCATCTCGAAGGTCCAACAGGTGATTTGTTTTGCATTCCATGACAGCAAGCTGCTGATGGAGACCTGCCAGGAGGCCAAGAAT
upper sequence: GRMZM2G022090_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT2G43945.1 (Arabidopsis thaliana), 3'ss of exon 5
ggattgaaagaggagtcacatttatttttatctctgtattaatatgtattgtgactagaataccacctttatatctagtggcaac-tgttgcaatcttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
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-------------------gtttgtgaataaaaaaccattgatatacctt-tggtgaagatggaatctgaacctcattggttaatatatatttatgtgcagGTTGTGTAATATGGACATCATATCACAAGTTCAACAAGTGATCTGCTTCGCGTTTCATGACAGTAAGCTTCTTATGGAGACATGTCAAGAAGCCAAAAAT
upper sequence: GRMZM2G022090_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 4
ggattgaaagaggagtcacatttatttttatctctgtattaatatgt-----attgtgactagaataccacctttatatctagtggcaactgttgcaatcttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
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----tgtcagacttctcagtagcattctgtactttaaattattttctgggtaaatgcaaagaggactctatctg-atcattgttcttgtcttggagagactgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
upper sequence: GRMZM2G022090_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0094g01380.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------------------------------------------------------------------ggattgaaagaggagtcacatttatttttatctctgtattaatatgtattgtgactagaataccacctttatatc-tagtggcaa-ctgttgcaat-cttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
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gtttgtaatagcttcctaaagcattggtctttgagcagatgaagccttttaggcatactcttttttctagtacaacgatcatctgcctttttcatgttatttagtgatttgatttattttttctttttcatttttgttgctaaatgctaaaaggg-gttttaatctgatagtgcctttctgtgacaaaactgcagGCTATGTAATATGGACATCATTTCACATGTACAGCAAGTCATTTGCTTTGCTTTTCATGATAGCAAGCTTCTCATGGAAACATGCCAAGAGGCCAAAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattgtgactagaataccacctttatatctagtggcaactgttgcaatcttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
tcttc CT-rich tract
tttatatcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggattgaaagaggagtcacatttatttttatctctgtattaatatgtattgtgactagaataccacctttatatctagtggcaactgttgcaatcttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - -atatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaactg
