Sequence
atgc intronic sequence ATGC exonic sequence...cagatctacatctttgatcacataatctattgagtgcttgagctatatatgtcatgctgtaaaatactgaagctgaaaattactgatttttttcctatagTATTATCTGAAGACCGGAACATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G107491_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g68860.3 (Oryza sativa), 3'ss of exon 3
cagatctacatctttgatcacataatctattgagtgcttgagctatatatgtcatgctgta-aaatactgaagctgaa-aattact-gatttttttcctatagTATTATCTGAAGACCGGAACATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACAT
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tgtttctagagttgacattatgcaattta--gagtggtgtagtttttt-tattaagttggacaggtgttgaaatgaaataatttctcaaaattttctgttcagTATTATCTGAAGACTGGAACATGCAAGTTTGGGCCTACATGCAAATTCCATCATCCCAGAGAAAAAGCTGGAATTGCAGGGAGGGTGCAGCTAAACACAT
upper sequence: GRMZM2G107491_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G36140.1 (Glycine max), 3'ss of exon 3
-cagat-ctacatctttgatcacataatctattg-agtgc-ttgagctatatat-gtcatgc----tgta---aaatactgaa-gctgaaaattactgatttttttcc---------tatagTATTATCTGAAGACCGGAACATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACAT
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gcacgtactagtttctcaaccttgtactgcagtgcagagcattaatttgtatcttggcatgcattctttatttaaacattcaccaatcatcataacagagttttttccccctgtttttctagTACTATCTGAAGACAGGAACGTGCAAATTTGGAGCCACATGCAAATTTCATCATCCTAAAGATCAGGCTGGGATTGCTGGAAGAGTTGCCTTAAATATTT
upper sequence: GRMZM2G107491_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G31370.3 (Glycine max), 3'ss of exon 3
----------------------------------cagatctacatctt-tgatcacataatctattgagtg-cttgagctatatatgtcatgctgtaaaatactgaagctgaaaattactgatttttttcctatagTATTATCTGAAGACCGGAACATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACAT
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gcatgtactagtttctcaaccttttactgcagtgcagagcactaatttgtaattttgtatcttggcatgcatctttatttaaacat-tcaccaatcgtcataacaaagtgttttttttcccctgtctttcc---agTACTATCTGAAGACAGGAACATGCAAATTTGGAGCCACATGCAAATTTCATCATCCTAAAGATCAGGCTGGAATTGCTGGAAGAGTTGCCTTAAATATTT
upper sequence: GRMZM2G107491_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 3
cagatctacatctttg-atcacataatctattgagtgcttgagctatatatgtcatgctgtaaaatactgaagctgaaaa--ttactgatttttttcctatagTATTATCTGAAGACCGGAACATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACAT
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---tttaatgtcctcatatcatgtgtaagatctctattttctcatttttttaatatgttctgagttggaagagttgacaaatttgctttgaatggttctccagTACTACTTGAAGACAGGAACTTGCAAGTTTGGAGCCACATGCAAGTTTCATCATCCTAGAGACAAGGCTGGAATTGCTGGAAGAGTTTCTTTAAATATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatatgtcatgctgtaaaatactgaagctgaaaattactgatttttttcctatagTATTATCTGAAGACCGGAACATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACAT
tactgat putative branch site (score: 2)
ctgatttttttcct CT-rich tract
aaaattactgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagatctacatctttgatcacataatctattgagtgcttgagctatatatgtcatgctgtaaaatactgaagctgaaaattactgatttttttcctatagTATTATCTGAAGACCGGAACATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT