Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtagatctgttagataatcttaaatctcttttctctaagcttgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 16
-ttttgtagatctgttagataa--tcttaaatctcttttctct------aagcttgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
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gttctatagattctttggatagcttcttacatccttcttttttttaaaaaaaaatattagagtaacaatataagcttcatgaca-caaat--------cttgtttccagAAAATGGAGATTCTTCCAGTTGATGACTTGGACATTGCATTGCATGATTTTGTGAGCAAGGATGACAAGATGGCGTTTTATGCCTGTTTGCAGCGGAATC
upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 16
lower sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 10
--ttttgtagatctgttagataatcttaaatctcttttctctaagcttgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
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gaatgacttgagct-ttcgttaaaaaggaatatgaatatagcaatgttagttcagtttaattttattttttaatgtatc-taaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 16
lower sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 15
--ttttgtagatctgttagataatcttaaatctcttttctctaagcttgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
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ggataagtggcattcaggtgtgacaacggaagcaatatagtta--tttaatcttttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
gtgtaac putative branch site (score: 3)
ttccttctttggtttc putative PPT
tttacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtagatctgttagataatcttaaatctcttttctctaagcttgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG