Sequence
atgc intronic sequence ATGC exonic sequence...ccataattccatatgattctctgttgcaacatggaagcaccctgctttcccctttctgctaatttctttgggtatgcctatatttattttatttttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G00330.1 (Glycine max), 3'ss of exon 2
-ccataattccatatgattctctgttgcaacatggaagcaccctgctttcccctttctgctaatttctttgggtatgcctatatttattttatttttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
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gttttaactcaa-gtatttgtccggttccggtagtgtgtatcaatcacacattcgcacccttagttgtacaacattttgaacagaattttgttttttacagGAGTTATTGGCCATTCAACAGCAAGGACCTAGAGCTATTGGCTTTTTTGGAACTCGGAACATGGGATTCATGCACCAAGAACTAATTGAGATTCTTAGCT
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G40350.2 (Glycine max), 3'ss of exon 2
--ccataattccatatgattctctgttgcaacatggaagcaccctgctttcccctttctgctaatttctttgggtatgcctatatttattttatt--tttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
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aattgttgccttgtgctatactct-ttgtcctgt---actgtagtgcatgtcaaacacacccatagttgtacagcattttgaacttcattatgtttctttacagGAGTTATTGGCCATTCAACAGCAAGGACCTAGAGCTATTGGCTTTTTTGGAACTCGGAACATGGGATTCATGCACCAAGAACTAATTGAGATTCTTAGCT
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G43945.1 (Arabidopsis thaliana), 3'ss of exon 2
------------------------------------------------------------ccataattccatatgattctctgttgcaa------catggaagcaccctgctttcccctttctgctaatttctt---tgggtatgcctatatttattttatttttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
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gtaagactagtttctctgcaaattcagcacgcagccttacatgaaggacattaaactcttatatcactcttta-ggctttatgttgtaaactatacttgttgattggcagattttggaatatcatgagtcttttagcttgttgtaaccgtgtatgtttaaatcg-acagGAGCTATTGGCGATACAGCAGCAAGGTCCTAGATCAATTGGCTTCTTTGGGACAAGAAATATGGGTTTCATGCATCAAGAACTGATTGAGATACTTAGCT
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G59870.1 (Arabidopsis thaliana), 3'ss of exon 2
ccataattccatatgattctctgttgcaacatggaagcaccctgctttcccctttctgctaatttctttgggtatgcctatatttattttatttttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
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--gtaagttaatctaaatttgactgcctagatgatggaagaccaaatg-----ttttatcagtcttttaggttgtaaccatatgcgaattg-----gcagGAACTGTTGGCTATACAGCAACAAGGACCAAGAACAATTGGCTTCTTTGGAACTAGAAATATGGGTTTCATGCATCAAGAGCTCATTCAGATTCTTAGCT
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ38716 (Selaginella moellendorffii), 3'ss of exon 1
ccataattccatatgattctctgttgcaacatggaagcaccctgctttcccctttctgctaatttctttgggtatgcctatatttattttat--ttttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
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------------gtaagttcttagttc--tctcgaaac-tcttgttccttcttctttg-----tttttcgggagttcttatgtttttctcttcctttctcagGAACTTCTCGCGATCCAACAACAAGGGCCAAGAGCTATCGGCTTCTTCGGAACGCGAAACATGGGATTCATGCATCAACAGCTTATTGAGATACTTAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcccctttctgctaatttctttgggtatgcctatatttattttatttttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
tgctaat putative branch site (score: 2)
tttattttattttt putative PPT
tatgcctatatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccataattccatatgattctctgttgcaacatggaagcaccctgctttcccctttctgctaatttctttgggtatgcctatatttattttatttttgcagGAGTTATTGGCCATTCAACAAGAAGGGCCAAGAGCTATTGGCTTCTTTGGGACACGAAATATGGGATTCCTGCATCAAGAACTTATCGAGATCCTGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - ccatatg
- - - - - - - - - -tctgttg
- - - - - - - - - - - - - caacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgcc