Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgggttttatctttttgtttcttcctttctgcagcttattaaataattaattggcttcattccattcagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 5
gtaagt--tgggttttatctttttgtttctt-----cctttctgcagcttattaaataattaattggcttcattccattcagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
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gtaagtgatcgaactattatttatatttactgatggtttggcttgagttcatcattcacatgatcaaacatactctttccagGTTGCAGAAATCCTCAAAGATCGGCCTTTGTGGTTTCGCGATTGCCGAGCTGTTGATGTTCTCAATGTGCTGCCCACAGCAAATGGTGGAACCATTGAGC
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 5
gtaag--ttgggttttatctttttgtttcttcctttctgc--------agcttattaaataattaattggcttcattccattcagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
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gtaagcattgagatttacaattatttatattactgattgttgggcttgagtttatctgtcacacggtcaaacatactctttccagGTTGCAGAAATCCTCAAAGATCAGCCTTTGTGGTTTCGCGATTGCCGAGCTGTTGATGTTCTCAATGTGCTGCCCACAGCAAATGGTGGAACCATTGAGC
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 5
----gtaagttgggttttatcttt--ttgtttcttccttt-ctgcagcttattaaataattaattggcttcattccattcagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
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gtaagtgattgaactattatttatgtttactgattgtttggcttgagtttatcattcacatgatcaaacatactctttccagGTTGCAGAAATCCTCAAAGATCGGCCTTTGTGGTTTCAGGATTGCCGAGCTGTTGATGTTCTCAATGTGCTGCCCACAGCAAATGGTGGAACCATTGAGC
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G21610.1 (Glycine max), 3'ss of exon 6
gtaagt--tgggttttatctttttgtttctt-----cctttctgcagcttattaaataattaattggcttcattccattcagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
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gtaagtgatcgaactattatttatatttactgatggtttggcttgagtttatcattcgcatgatcaaacatactctttccagGTTGCAGAAATCCTCAAAGATCGGCCTTTGTGGTTTCGTGATTGCCGAGCTGTTGATGTTCTCAATGTTCTGCCCACAGCAAATGGTGGAACCATTGAGC
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 5
---------------------gtaagttgggttttatctttttgtttcttcctttctgcagct---tattaaataa---ttaattggcttcattccatt-cagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
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gtgcgtttatagaatcattctcatcgctgatttatacaatcttatactactctacatgtgtctacatatgtaacaacattcatctgttttcactattttacagGTTGCAGAGATTGTCAAGGATCGTCCTTCGTGGTTCCGCGAATGTCGAGCTGTTGAAGTTATGAACGTGTTGCCAACTGCCAATGGTGGAACCGTTGAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtttcttcctttctgcagcttattaaataattaattggcttcattccattcagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
aattaat putative branch site (score: 3)
cttcattcc putative PPT
ttattaaataattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgggttttatctttttgtttcttcctttctgcagcttattaaataattaattggcttcattccattcagGTTGCAGAGATCCTCAAGGATCGGCCATCCTGGTTTCGCGATTGCCGAGCTGTGGATGTGCTGAATGTGTTGCCCACTGCAAATGGTGGAACTATTGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA