Sequence
atgc intronic sequence ATGC exonic sequence...cgaaatacaagtatctggagtctattattattataagatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgttacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G478212_T01 (Zea mays), 3'ss of exon 7
cgaaatacaagtatctggagtctattattattataagata-tgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgttacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
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gtaattttctggatacaatgccgttctgcatcgtttggtaatccttcgtttgtgagcatgtgtctga-atgtaatct--tgcttggctgatgatggtgtagTGCTCATGGACTGGGGACAGCAGCACTGTCAGCCAAGGAACCTGAAGCGCTTCCTTTCTGCGCCATCGCTTATGGTCTCACGGGAATTTTTGGCTCCTTG
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G15800.1 (Glycine max), 3'ss of exon 7
cgaaatacaagtatctggagtct---attattattataagatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgttacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
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--aaattaatctataccaaacatgcaataatagttgaatgacattttctttgtgcgtgcatg-gttatttacttactctcttgacctaaattttatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTGAATGGTATATTTGGATCCATT
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G34440.1 (Glycine max), 3'ss of exon 6
cgaaatacaagtatctggagtctattattattataagatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgt-----tacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
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---agaaatggtatttaggaaacat-gccattaaggtagataaactattttcttgc-tgaggcatatatgcttatttttgcttcctcttggatgaatttatacagTTGTCACGGGCTTGGAACAGCAGCCTTATCTGCCAAGGAACCTGAGGCTCTTCCATTTTGTGCTATTGCTTATGCTCTGACTGGAATATTTGGATCTATA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G34720.1 (Glycine max), 3'ss of exon 9
cgaaatacaagtatctggagtctattattattataagatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgtt-acagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCT-CACTC
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gaatttttgaaaaaaaagtgattatt-ttctcaacaaatatacaaagcatgaataagtgattatttacttactctttcgactaaatatttatttttcacagTGCCCACAGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCTGAGGCTCTCCCATTTTGTGCCATTGCATATGCTCTGAATGGTATTTGGATCTATACT-
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G01340.1 (Glycine max), 3'ss of exon 6
cgaaatacaagtatctggagtctattattattata-agatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgt-tacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
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agaaatagta-tgtaggaaacatgtcattaaggtagataaactattttcttcttgaagcatatatgct-tatttttgcttcctcttggatcaatttatacagTTGCCACGGGCTCGGAACAGCAGCTTTATCTGCCAAGGAACCTGAGGCTCTTCCATTTTGTGCCATTGCTTATGGTCTGACTGGGATATTTGGATCTATA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 7
cgaaatacaagtatctggagtctattattattataagatatgat-gcgcat-gttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgttacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
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-gtgactccattacaaaagatctttcac-attttgaattaaaattatgcattaatgccattaggatcaaaagacatgacctttctattttttatgg--acagTGCTCATGGACTTGGAACAGCAGCTTTGTCGGCTAAGGAGCCAGAGGCTCTTCCCTTTTGTGCAATAGCTTATGCTCTTACCGGAATCTTCGGATCGTTA
upper sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ16631 (Selaginella moellendorffii), 3'ss of exon 6
cgaaatacaagtatctggagtctattattattataagatatgatgcgcatgttgggatgagtaaaata-tgttgtttgttgtttgttgtttgatgttacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
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-----------------------gtttgcattttaaaatgcg-tgaactttaatgtctcatcatcgtcctgatccttcttcttctttttcttct-tgccagTGCTCATGGATTAGGCACTGCAGCGCTATCCGCAAAAGAACCCGAGGCACTACCGTTTTGTGCGATAGCTTATGCTCTCACGGGAATAATCTCGTCGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgttacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
gtttgat putative branch site (score: 5)
taaaatatgttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgaaatacaagtatctggagtctattattattataagatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgttacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC
-gaaatac
- - - - - - - - - - - - - - - - - - - - -gatgcgc
- - - - - - - - - - - - - - - - - - - - - - - - -tgttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatat