Sequence
atgc intronic sequence ATGC exonic sequencegttagttggtttttgataagatctggtactcatggttttcttgtttctaaaaacatatgttatttcttcatttgtacctgatgcttcttaaatcttttgttctttatttgctgcagCATGCAATTTGATTAATAATGACATGAAACAATTCATCATCAGTTCAGAAACTGATGCAATTAGAGAAGTTGAAAACAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os10g27220.1 (Oryza sativa), 3'ss of exon 4
---gttagttggtttttgataagatctggtac-tcatggttt---tcttgtttctaaaaa-------catatgttatttcttcat-ttgtacctgatgcttcttaaatcttttgttctttatttgc--tgcagCATGCAATTTGATTAATAATGACATGAAACAATTCATCATCAGTTCAGAAACTGATGCAATTAGAGAAGTTGAAAACAGG
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gtgatatttttattcttaattatattgctcatgtcgtttcttcgattttttttcttgagattcttttcatattttcctgtctcatcttatatctaaatatatagaggatttgagttgattctctgctctgcagCCTGCAGCCTGGTGAACAATGATATGAAACAATTCATCATCAGCTCGGAGACAGATGTAATTAGAGAGGCTGAAGACAGG
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 12
gttagttggtttttgataagatctggtactcatggttttcttgtttctaaaaacatatgtt-atttcttcatttgtacctgatgcttcttaaatcttttgttctttatttgctgcagCATGCAATTTGATTAATAATGACATGAAACAATTCATCATCAGTTCAGAAACTGATGCAATTAGAGAAGTTGAAAACAGG
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gtgagactgttttgaattagacccattttttttcttctttttatgcttatgttaatctgcccaaaagtgtagcagcagttatctcattttatatcttttttccacc--ttgctgcagCATGCAACTTGATAAACAATGAGATGAAGCAATTTGTTATTAGTTCAGAAACTGATGCAATTAGAGAAGTTGAAGACAGG
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA08G40530.1 (Glycine max), 3'ss of exon 20
gttagttggtttttgataagatctggtactcatggttttcttgtttctaaaaacatatgttatttcttc---atttgtacctgatgcttcttaaatcttttgttctttatttgctgcagCATGCAATTTGATTAATAATGACATGAAACAATTCATCATCAGTTCAGAAACTGATGCAATTAGAGAAGTTGAAAACAGG
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gtgagactgttttgagttagacc-------catattttatttttatttttatgcttatgttaatctgcccaaaagtgtagcagtta-tcattgtatatcttgttttcaccttgctacagCATGCAACTTGATAAACAATGAGATGAAGCAATTTGTTATTAGTTCAGAAACTGATGAAATTAGAGAAGTTGAAGACAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcttcatttgtacctgatgcttcttaaatcttttgttctttatttgctgcagCATGCAATTTGATTAATAATGACATGAAACAATTCATCATCAGTTCAGAAACTGATGCAATTAGAGAAGTTGAAAACAGG
acctgat putative branch site (score: 4)
tcttttgttctttatt putative PPT
ttaaatcttttgttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttggtttttgataagatctggtactcatggttttcttgtttctaaaaacatatgttatttcttcatttgtacctgatgcttcttaaatcttttgttctttatttgctgcagCATGCAATTTGATTAATAATGACATGAAACAATTCATCATCAGTTCAGAAACTGATGCAATTAGAGAAGTTGAAAACAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT