Sequence
atgc intronic sequence ATGC exonic sequencegtggaaaaatgaagaactgtgaagagcacactttgcaatgagagaagttcacggagccattgcatggtttgttgcattcaaccaaccatcactttgaacgttcatttttttaaaaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G408308_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g56540.1 (Oryza sativa), 3'ss of exon 2
gtggaaaaatgaagaactgtgaagagcacactttgcaatgagagaagttcacggagccattgcatggtttgttgcattcaaccaaccatcactttgaacgttcatttttttaa-aaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
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----------------------------------------------gttagttgcacacttgcgt----tctcgtattgagctg-ttagctcctggaatcttcatttcaaaaatgaactcgctattgataagcttcgctttacttctctagATAATTTTGGATGTTCCATCGGTGGGGGGAAGGCTCATGCTTGTGGATATGGCTGGTTCTGAGAACATAGAAGCAGCAGGCCAAACTGGATTTGAAGCCA
upper sequence: GRMZM2G408308_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 3
gtggaaaaatgaagaactgtgaagagcacactttgcaatgagagaagttcacggagccattgcatggtttgttgcattcaaccaaccatcactttgaacgttcatttttttaaaaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
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-------------------------------------------------------gtatgtggtagctttggaggatggttctgattaaatctataaagttcccttgattggtaactga---ttacatgtattctattctg-atc---agGTAATCCTTGATGTCCCAACTGTGGGAGGGCGGCTAATGCTTGTGGACATGGCAGGATCAGAAAATATTGAACAAGCTGGTCAAACTGGATTTGAGGCCA
upper sequence: GRMZM2G408308_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT4G14330.1 (Arabidopsis thaliana), 3'ss of exon 2
gtggaaaaatgaagaactgtgaagagcacactttgcaatgagagaagttcacggagccattgcatggtttgttgcattcaaccaaccatcactttgaac-gttcatttttttaaaaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
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-------------------------------------------------gtaagaacgatcttcttgattgatgtgt------atgcatagctttatgcagcttatctctgt----tttaacttacta-gtgtggttgtttctttttgtagATCATACTTGATGTGCCAACTGTTGGGGGAAGATTGATGCTTGTTGACATGGCTGGTTCTGAAAATATAGACCAAGCTGGGCAGACTGGATTTGAAGCTA
upper sequence: GRMZM2G408308_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
gtggaaaaatgaagaactgtgaagagcacactttgcaatgagagaagttcacggagccattgcatggtttgttgcattcaaccaaccatcactttgaacgttcatttttttaaaaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
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-------------------------------------------------gtctgaatctcttaaaactttattaggttatgacaacctt---tccaaatcttcttgctttataaacttaatcttct-----gtgtgcatt---tgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacgttcatttttttaaaaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
ttcatttttttaaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggaaaaatgaagaactgtgaagagcacactttgcaatgagagaagttcacggagccattgcatggtttgttgcattcaaccaaccatcactttgaacgttcatttttttaaaaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC