Sequence
atgc intronic sequence ATGC exonic sequencegttctcgaccaatatacaccattatttttgtaaaacatctctttggaaatcacacctttatctcttcattatctcttctccatcttagtgtctttttactatttcatgcattttatttcctctgcctaactcgaatttgtgttctttctttagACAATAAAAAATGATGATCTGGAGGAGATTCGGGAATTAGGTTCTGGTACGTATGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g01480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g54510.3 (Oryza sativa), 3'ss of exon 3
gttctcgaccaatatacaccattatttttgtaaaacatctctttggaaatcacacctttatctcttcattatctcttctccatcttagtgtctttttactatttcatgcattttatttcctctgcctaactcgaatttgtgttctttctttagACAATAAAAAATGATGATCTGGAGGAGATTCGGGAATTAGGTTCTGGTACGTATGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAA
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---------------------------------------------------------gtgttttttc-tgatctcttgata--tgtagtattgtttt--taattca-acattgtatcccgcttatatgc------tctgtttggatcatgcagACTATAAAAAATGATGACTTGGAGGAAATTAGGGAGCTAGGTTCAGGTACTTATGGTGCAGTTTACCATGGTAAATGGAGAGGATGTGATGTTGCTATTA
upper sequence: Vv11s0052g01480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G01190.2 (Glycine max), 3'ss of exon 5
gttctcgaccaatatacaccattatttttgtaaaacatctctttggaaatcacacctttatctcttcattatctcttctccatcttagtgtctttttactatttcatgcattttatttcctctgcctaactcgaatttg---------tgttctttctttagACAATAAAAAATGATGATCTGGAGGAGATTCGGGAATTAGGTTCTGGTACGTATGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAA
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------------------------------------gttttctt------tccatctt-actcatccattatgttctcatcatttca-tgttttaaggtcttttctggctttccttttcccacatgcgtctaggatttgatggtaggctgatcatttttcagACTATTAACAATGATGATTTGGAGGAGATCCGTGAGCTTGGTTCTGGAACCTATGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTA
upper sequence: Vv11s0052g01480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G57610.1 (Arabidopsis thaliana), 3'ss of exon 3
gttctcgaccaatatacaccattatttttgtaaaacatctctttggaaatcacacctttatctcttcattatctcttctccatcttagtgtctttttactatttcatgcattttatttcctctgcctaactcgaatttgtgttctttctttagACAATAAAAAATGATGATCTGGAGGAGATTCGGGAATTAGGTTCTGGTACGTATGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAA
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-----------------------------------------------------gtttttattcttaaacccgtcttatagaattctgaaaccgaacaaatttctagtccttttgactttgttatcttggtt----ttcaccttctttatctagTCTATAAGAAACGATGATTTGGAGGAAATCCGAGAGTTAGGCCATGGAACATATGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctatttcatgcattttatttcctctgcctaactcgaatttgtgttctttctttagACAATAAAAAATGATGATCTGGAGGAGATTCGGGAATTAGGTTCTGGTACGTATGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAA
gcctaac putative branch site (score: 2)
tttgtgttctttcttt putative PPT
attttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctcgaccaatatacaccattatttttgtaaaacatctctttggaaatcacacctttatctcttcattatctcttctccatcttagtgtctttttactatttcatgcattttatttcctctgcctaactcgaatttgtgttctttctttagACAATAAAAAATGATGATCTGGAGGAGATTCGGGAATTAGGTTCTGGTACGTATGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG