Sequence
atgc intronic sequence ATGC exonic sequencegtcagtgcttcgagtatgcgttatattataacaaccttgtttcatcgacgtattcctgcgtttcctgaggctgtcgccgatcatcatatatagGAGAAGCAGCGGATTTTCTCGAGGTGCTTCCATCTACCGAGGGGTGACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G021573_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g12950.1 (Oryza sativa), 3'ss of exon 6
---------------------------gtcagtgcttcgagtatgcgttatattataacaaccttgtttca--tcgacgtattcctgcgtttcctgaggctgtcgccgatcatcatatatagGAGAAGCAGCGGATTTTCTCGAGGTGCTTCCATCTACCGAGGGGTGACAAG
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gtcagcagcatgctcattttgcctgaattctatgattagattat-tatcagattgatatgtactagtaacaagctgtttttttaaaaaactatatgtactaacaagctgttcctgctcacagGAGAAGCAGCGGGTTCTCTCGCGGTGCTTCCATCTACCGGGGAGTAACAAG
upper sequence: GRMZM2G021573_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G05170.1 (Glycine max), 3'ss of exon 7
--------gtcagtgcttcgagtatgcgttatattataacaaccttgtttcatcgacgtattcctg-cgtttcctgaggctgtcgccgatcatcatatatagGAGAAGCAGCGGATTTTCTCGAGGTGCTTCCATCTACCGAGGGGTGACAAG
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gtacacacatttattaattaattaaaaactatgtagggaaaaccttccaattattatatgataatgataatcattatgattgtgtatttgtttgctttgtagAAAAAGCAGCGGATTTTCTAGAGGTGCTTCAATATACAGAGGGGTCACAAG
upper sequence: GRMZM2G021573_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S66_282V6.1 (Physcomitrella patens), 3'ss of exon 5
---gtcagtgcttcgagta-tgcgttatattataacaaccttgtttcatcga-cgtattcctgcgtttcctgaggctgtcgccgatcatcatata--tagGAGAAGCAGCGGATTTTCTCGAGGTGCTTCCATCTACCGAGGGGTGACAAG-------------------------------------------------
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ggcgctgcagaggaaggtggcggagcggagtgggagaatggggcgacgatgagcgcggttctgaagtggtggaagtgttgttggaacgtggtgtgggcagGAAAAGCAGCGGGTTTTCTCGAGGGGCATCGATGTACCGAGGGGTGACGAGGCACCATCAGCACGGGAGGTGGCAGGCACGGATTGGGCGCGTGGCCGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcatcgacgtattcctgcgtttcctgaggctgtcgccgatcatcatatatagGAGAAGCAGCGGATTTTCTCGAGGTGCTTCCATCTACCGAGGGGTGACAAG
atcatatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtgcttcgagtatgcgttatattataacaaccttgtttcatcgacgtattcctgcgtttcctgaggctgtcgccgatcatcatatatagGAGAAGCAGCGGATTTTCTCGAGGTGCTTCCATCTACCGAGGGGTGACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC