Sequence
atgc intronic sequence ATGC exonic sequencegtccaggcacgtatatatattaacggtctccaccattatatatatatattagttgcttaacatgtatgtaatgacgatcatgcatgttatcatgtgtatgtaatgcagGGCTGCGACGCGTCGTTGCTGCTGGACGACACGCCCAGCTTCCAGGGCGAGAAGATGGCCAAGCCTAACAACGGCTCCGTCAGAGGCTTCGAGGTCATCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G171078_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g02130.1 (Oryza sativa), 3'ss of exon 1
gtccaggcacgtatatatattaacggtctccaccattatatatatatattagttgcttaacatgtatgtaatgacgatcatgcatgttatcatgtgtatgtaatgcagGGCTGCGACGCGTCGTTGCTGCTGGACGACACGCCCAGCTTCCAGGGCGAGAAGATGGCCAAGCCTAACAACGGCTCCGTCAGAGGCTTCGAGGTCATCG
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----------gtaactgt-ttgaccatcgat-cgatcatg-gtacgtgttgg--gctaaccattcttgcagcgac--tgatcgatg--accataagcacgt---gtagGGTTGCGACGCATCGCTGCTGCTGGACGACACGGCGAGCTTCACCGGCGAGAAGATGGCGAACCCCAACAACGGCTCCGTCAGAGGGTTCGAGGTGATCG
upper sequence: GRMZM2G171078_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g02080.2 (Oryza sativa), 3'ss of exon 1
gtccaggcacgtatatatattaacggtctccaccattatatatatatattagttgcttaacatgtatgtaatgacgatcatgcatg-ttatcatgtgtatgta---atgc-agGGCTGCGACGCGTCGTTGCTGCTGGACGACACGCCCAGCTTCCAGGGCGAGAAGATGGCCAAGCCTAACAACGGCTCCGTCAGAGGCTTCGAGGTCATCG
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-------------------gtaaccatcctctacctagtacaagtatac----------gcacgcacacattgatcatgctatataattaatctgtgcatgtatgaatgccagGGTTGCGACGCATCGCTGCTGCTGGACGACACGGCGAGCTTCACCGGCGAGAAGACGGCGAACCCCAACAACGGCTCCGTCAGAGGGTTTGAGGTGATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttaacatgtatgtaatgacgatcatgcatgttatcatgtgtatgtaatgcagGGCTGCGACGCGTCGTTGCTGCTGGACGACACGCCCAGCTTCCAGGGCGAGAAGATGGCCAAGCCTAACAACGGCTCCGTCAGAGGCTTCGAGGTCATCG
gcttaac putative branch site (score: 3)
tatgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccaggcacgtatatatattaacggtctccaccattatatatatatattagttgcttaacatgtatgtaatgacgatcatgcatgttatcatgtgtatgtaatgcagGGCTGCGACGCGTCGTTGCTGCTGGACGACACGCCCAGCTTCCAGGGCGAGAAGATGGCCAAGCCTAACAACGGCTCCGTCAGAGGCTTCGAGGTCATCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG