Sequence
atgc intronic sequence ATGC exonic sequencegtttgctacttgaactccattgactagttaatatgtaggggaaatcctttacaattttaaattatcttcatgcagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G858094_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os05g22940.1 (Oryza sativa), 3'ss of exon 10
gtttgctacttgaactccattgactagttaatat--gtaggggaaatcctttacaattttaaattatcttcatgcagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
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gtcggctcctttgacattcttcaggaattaatttctgttgaccacatgatttacattgtcaaatggtctc---acagGTTGAGCATCCTGTCACTGAGTGGATAGCTGAAGTAAATTTGCCTGCGGCTCAAGTTGCTGTTGGAATGGGTATACCCCTTTGGCAGATTCCAG
upper sequence: GRMZM5G858094_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 6
-------------------gtttgctacttgaactccattgactagttaata--tgtaggggaaatcctttacaatttta----aattatcttcatgcagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
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tcccgttttccagaccctgttttgtttttttatgttatttcatttttcctttatttttgacaacatcagtgattgttttgctatattgattgttatatagGTTGAACATCCTGTTACTGAGTGGATAGCAGAGATAAATCTGCCAGCAGCACAAGTTGCCATTGGGATGGGTGTTCCTCTCTGGCAAATTCCTG
upper sequence: GRMZM5G858094_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA04G11550.1 (Glycine max), 3'ss of exon 6
-------------------------gtttgctacttgaactccattgactagttaatatgtaggggaaatcctttacaattttaaattatcttcatgcagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
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cttcctgttttatagaccctattttgttttttaatgttatttcatttttcctttatttttcaccatcagtgattgttttgctatattgattgttatatagGTTGAACATCCTGTTACTGAGTGGATAGCAGAGATAAATCTGCCAGCAGCACAAGTTGCCATTGGGATGGGTATCCCTCTCTGGCAAATTCCTG
upper sequence: GRMZM5G858094_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G36180.1 (Arabidopsis thaliana), 3'ss of exon 7
gtttgctact-tgaactccattgactagttaatatgtaggg-gaaatcctttacaattttaaatt--atcttc-atg-cagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
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gtttctttccatacacaccatagctacctttccttttcgaatgaaagattttggtcttgaaaatcgaatgttcgatgtcagGTTGAGCATCCTGTAACCGAGTGGATCGCCGAGGTTAATCTTCCTGCTGCTCAAGTTGCTGTTGGGATGGGAATTCCTCTCTGGCAAATCCCTG
upper sequence: GRMZM5G858094_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G36160.2 (Arabidopsis thaliana), 3'ss of exon 7
----gtttgctacttgaactccattgactagttaatatgtaggggaaatcctttacaatt------ttaaattatcttcatg--------cagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
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gttggtttcatactgcagctttttgcgttgaaatatattgaaggtccggacttgaaaattgaatgacttgtttaacttgatgtttgaggtcagGTTGAGCATCCTGTCACTGAGTGGATTGCCGAGATAAATCTTCCTGCTGCCCAAGTTGCTGTGGGGATGGGAATTCCTCTCTGGCAAATCCCTG
upper sequence: GRMZM5G858094_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 7
-------------------gtttgctacttgaac--tccattgac---tagttaatatgtaggggaaatcctttacaattttaaatta-tcttcatgcagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
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tggttctgatacacgtcatttttatcagtgcaatagccaatttgcacctatgttagatgccatgtaatctttttaaatttcttaattaatttttatcaagGTGGAGCACCCTGTCACGGAGTGGATAGCAGAAGTAAATCTGCCAGCAGCCCAAGTTGCAGTAGGAATGGGGATTCCTCTCTGGCAAATTCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgactagttaatatgtaggggaaatcctttacaattttaaattatcttcatgcagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
ttatcttc CT-rich tract
aaatcctttacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgctacttgaactccattgactagttaatatgtaggggaaatcctttacaattttaaattatcttcatgcagGTTGAGCATCCAGTCACCGAGTGGATAGCTGAAGTAAATCTGCCTGCAGCTCAAGTTGCTGTTGGAATGGGCATACCTCTTTGGCAGATTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT