Sequence
atgc intronic sequence ATGC exonic sequencegttagcctcagtatagagatgattgaatgtagcttggtgacttggtttaaaaccattctgatttccaagcttgtcacaaattatgcagACATTACATCAAATGTTTATTGTAAATGCTGGACCTGGTTTCAAGCTGATATGGAGCACTGTTAAGGGACTTCTTGACCCAAAAACGTCATCTAAAATAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g48990.1 (Oryza sativa), 3'ss of exon 6
gttagcctcagtatagagatgattgaatgtagcttggtgacttggtttaaaaccattctgatttccaagcttgtcacaaattatgcagACATTACATCAAATGTTTATTGTAAATGCTGGACCTGGTTTCAAGCTGATATGGAGCACTGTTAAGGGACTTCTTGACCCAAAAACGTCATCTAAAATAC
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------------gtaggtgttactta-tgaaatttag--gcctattttgtaatcatgctgactaccaagcttgccctaaatcatgcagACACTACATCAAATGTTCATTGTAAATGCGGGGCCTGGTTTTAAACTGATCTGGAGTACTGTGAAGGGACTTCTTGACCCCAAAACCTCGTCTAAAATCC
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G12450.1 (Glycine max), 3'ss of exon 6
gttagcctcagtatagagatgattgaatgtagcttggtgacttggtttaaaaccattctgatttccaagcttgtcacaaat-tatgcagACATTACATCAAATGTTTATTGTAAATGCTGGACCTGGTTTCAAGCTGATATGGAGCACTGTTA---AGGGACTTCTTGACCCAAAAACGTCATCTAAAATAC
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----gtttttgtcccatcctttcccaaattaacatctt--ttcatccctcttccattct-atataaaacttgatagtgtatatttgcagACATTACATCAAATGTATATTGTCAATGCTGGTTCTGGCTTTAAGAAGATGCTTTGGCCTGCCACACAGAAGTTTCTTGATTCCAAAACCATTGCGAAGA---
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 5
lower sequence: EFJ17479 (Selaginella moellendorffii), 3'ss of exon 4
gttagcctcagtatagagatgattgaatgtagcttggtgacttggtttaaaaccattctgatttccaagcttgt-cacaaattatgcagACATTACATCAAATGTTTATTGTAAATGCTGGACCTGGTTTCAAGCTGATATGGAGCACTGTTAAGGGACTTCTTGACCCAAAAACGTCATCTAAAATAC
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--------------------------gtg-agcctgctcgttgaactctatgcctttc---ttcctgagtttatgcgtttattatgcagACATTGCATCGTATGTTTATTATAAATGCTGGTCCTGGATTTAAGCTTGTGTGGAACACCATACGGGGATTTTTAGATCCGAAAACAGCTACCAAAATAT
upper sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 5
lower sequence: EFJ28804 (Selaginella moellendorffii), 3'ss of exon 4
gttagcctcagtatagagatgattgaatgtagcttggtgacttggtttaaaaccattctgatttccaagcttgt-cacaaattatgcagACATTACATCAAATGTTTATTGTAAATGCTGGACCTGGTTTCAAGCTGATATGGAGCACTGTTAAGGGACTTCTTGACCCAAAAACGTCATCTAAAATAC
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---------------------------gtcagcctgctcgttgaactctatgcttttc---ttcctgagtttatgcgtttattatgcagACATTGCATCGTATGTTTATTATAAATGCTGGTCCTGGATTTAAGCTTGTGTGGAACACCATACGGGGATTTTTAGATCCGAAAACAGCTACCAAAATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggtgacttggtttaaaaccattctgatttccaagcttgtcacaaattatgcagACATTACATCAAATGTTTATTGTAAATGCTGGACCTGGTTTCAAGCTGATATGGAGCACTGTTAAGGGACTTCTTGACCCAAAAACGTCATCTAAAATAC
ttctgat putative branch site (score: 3)
acaaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagcctcagtatagagatgattgaatgtagcttggtgacttggtttaaaaccattctgatttccaagcttgtcacaaattatgcagACATTACATCAAATGTTTATTGTAAATGCTGGACCTGGTTTCAAGCTGATATGGAGCACTGTTAAGGGACTTCTTGACCCAAAAACGTCATCTAAAATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA