Sequence
atgc intronic sequence ATGC exonic sequencegtcagttctacaaatttgggattccactagatggttatgaagttgcaaatggtgccagtgcaccatatcgttgaatttgctgcatgtctttgattatgtgataggcattatcagatttttactcatatatctggttgaccatcaatgttttgtgctgctcagGATGATGCTTCAGTTTCAAATGGAAACAGGGATCAACCTTGTTTTGATGGCATGGCAGATGTTGAGGTTGAAAGAAAATTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 6
gtcagttctacaaatttggg-attccactagatggttatgaagttgcaaatggtgccagtgcaccatatcgttgaatttgctgcatgtctttgattatgtgataggcattatcagatttttactcatatatctggttgaccatcaatgttttgtgctgctcagGATGATGCTTCAGTTTCAAATGGAAACAGGGATCAACCTTGTTTTGATGGCATGGCAGATGTTGAGGTTGAAAGAAAATTAAAG
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-------------gttagtgcatgtcaatgtataaacatacatatctttttatcagttgggcat-atactatgtaacatgttgaag----ttgaagctgt-atttgtataatttaattttttgcaatatatgtgtttgactgtttatgctctg--ctactcagGATGATGGTTCTATTTCCAATGGAAACAGAGATCCGTTCTTGTTTGATGGCATGGCAGATGCTGAGGTAGAAAGAAAATTGAAG
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G31510.1 (Glycine max), 3'ss of exon 6
gtcagttctacaaatttgggattccactagatggttatgaagttgcaaatg-gtgccagtgcaccatatcgttgaatttgctgcatgtc--tttgattatgtgataggcattatcagatttttactcatatatctggttgaccatcaatgttttgtgctgctcagGATGATGCTTCAGTTTCAAATGGAAACAGGGATCAACCTTGTTTTGATGGCATGGCAGATGTTGAGGTTGAAAGAAAATTAAAG
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--------------gttagtgtactactgtacattta--actttaagtatacatgttattaaccaatactat--aatctgctgggttttagtatggtgaaatt-taagcagaatgcgaatcat-ttaatttgatcatatgtatgtgtctgttttttgtttttcagGATGATGCATCTGCTTCCAATGGAAATAAAAATTTGCTTCTATTTGATGGCATGGCAGATGCTGAGGTAGAAAGAAGATTAAAG
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G31430.1 (Glycine max), 3'ss of exon 6
gtcagttctacaaatttgggattccactagatggttatgaagttgcaaatggtgccagtgcaccatatcgttgaatttgctgcatgtctttgattatgtgatag--gcattatcagatttttactcatatatctggttgaccatcaatgttttg-tgctgctcagGATGATGCTTCAGTTTCAAATGGAAACAGGGATCAACCTTGTTTTGATGGCATGGCAGATGTTGAGGTTGAAAGAAAATTAAAG
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-----------------gttagtgcacttaaatgt-ataaatttacatattttttttat-cagttgggcatatactatgtaacattttgaagttgaagcagtatttgtataatttaattttg--taacatatgtgtttgagtgtttatgttctactgctactcagGATGATGGCTCTATTTCCAATGGACACCGAGATCCATTCTTGTTTGATGGCATGGCAGATGCCGAGGTAGAAAGAAAATTAAAG
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G07800.1 (Glycine max), 3'ss of exon 6
gtcagttctacaaatttgggattccactagatggtta--tgaagttgcaaatggtgccagtgcaccatatcgttgaatttgctgcatgtctttgattatgtgataggcattatcagatttttactcatatatctggttgaccatcaatgttttgtgctgctcagGATGATGCTTCAGTTTCAAATGGAAACAGGGATCAACCTTGTTTTGATGGCATGGCAGATGTTGAGGTTGAAAGAAAATTAAAG
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--------------gttagtgtactactgtacatttaactttaagtatacatgttacaaac---caatactat--aatctgctgggt----tatagtatgttg-aaatttaagcagaatgcgaatcatttatgtttctgt---------ttttttgtttttcagGATGATGCATCTGCTTCCAATGGAAATAAAAATTTGCTTCTATTTGATGGCATGGCAGATGCTGAGGTAGAAAGAAGATTAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatcagatttttactcatatatctggttgaccatcaatgttttgtgctgctcagGATGATGCTTCAGTTTCAAATGGAAACAGGGATCAACCTTGTTTTGATGGCATGGCAGATGTTGAGGTTGAAAGAAAATTAAAG
ggttgac putative branch site (score: 4)
atttttactcatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttctacaaatttgggattccactagatggttatgaagttgcaaatggtgccagtgcaccatatcgttgaatttgctgcatgtctttgattatgtgataggcattatcagatttttactcatatatctggttgaccatcaatgttttgtgctgctcagGATGATGCTTCAGTTTCAAATGGAAACAGGGATCAACCTTGTTTTGATGGCATGGCAGATGTTGAGGTTGAAAGAAAATTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA