Sequence
atgc intronic sequence ATGC exonic sequencegtttgcacatatctaacttatcattttctttttctgattagatgttcttttgctagtttgaatagcaaagctatgtttgaccttttggccattttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G46780.1 (Glycine max), 3'ss of exon 2
------------gtttgcacatatct---aacttatcattttctttttctgattagatgttcttttgctagtttgaatagcaaagctatgtt----tgacctt--ttggccatt-ttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
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gttctactacctgtttgcctctctctttaatgtttttacattgttattatctttatacaagataatttatggctgaacaacaatg-tatgtcaagatgatcttacttgggggttattctttgtatagGAACGAAAGTCTTATGATGAGAAATTCATTAGGATGGACACAAAGCGGCTATGTGAGTTGACATCTGCTGCAGACAGCCTTCAGTTGAAGCCATTGGTTG
upper sequence: Vv15s0046g02450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G39480.1 (Glycine max), 3'ss of exon 3
-gtttgc-acatatctaacttatcattttc-tttttctgattagatgttctttt-------gctagttt------gaatagcaaagctatgtttgacct-tttggccattttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
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gttctactacctgttttacctctctctttaatgtttatacattgttgttatctttatacaagataatttatggctgaacaacaatgtcaagatgatcttacttgggggttattcttgtatagGAACGAAAGTCTTATGATGAGAAATTCATTAGGATGGACACAAAGCGGCTATGTGAGTTGACATCTGCTGCAGACAGCCTTCAGTTAAAGCCATTGGTTG
upper sequence: Vv15s0046g02450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G01090.2 (Glycine max), 3'ss of exon 2
-------------gtttgcacatatctaacttatcattttcttttt--ctgattagatgttcttttgctagtttgaatagcaaagctatgtttgaccttttggccattttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
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gtttgacttctttttttcaatgctcctacattgttattatcttcatagttgacaagacgatccaagcctgaacaataaatgtgaaaggtatttgacttagggattattctttt--tatagGAACGTAAATCTTATGATGAGAAATTTGTTAGGATAGACACAGAGAGGCTTTGTGAGTTGACATCTGCTGCAGACAGCCTTCAGTTAAAACCTTTGGTGG
upper sequence: Vv15s0046g02450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G07600.1 (Glycine max), 3'ss of exon 3
----------gtttgcacatatctaacttatcattttctttttctgattagatgttcttttgctagtttgaatagcaaagcta-----tgtttgaccttttggccattttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
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gtttgactgctttttttcaatgctcttgtattgttattattttcatacttgacaagatgatccaagcctgaacaataaatgtgaaaggtatttgacttgtggactattcgttt--tatagGAACGTAAATCTTATGATGAGAAATTTGTTAGGATAGACACGGAGAGGCTTTGTGAGTTGACATCTGCTGCAGACAGCCTTCAGTTAAAACCTTTGGTTG
upper sequence: Vv15s0046g02450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G61415.2 (Arabidopsis thaliana), 3'ss of exon 3
gtttgcacatatctaacttatcattttctttttctgattagatgttcttttgctagtttgaata-gcaaagctatgtttgaccttttggccattttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
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-----------gtttacttgaggttattaaatttgaaacaattaatgacatgtcgattatcctatgcctttttttcatagagctctttgttacttttt------agGAACGTAAAGTTTATGATGAAAAATTCATCCGGATGGATACAAAGAGGCTCTGTGAGTTGACCTCAGCCGCTGACAGTTTGCAGTTGAAGCCGTTGGTTG
upper sequence: Vv15s0046g02450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G45950.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttgcacatatctaacttatcattttctttttctgattagatgttcttttgctagtttgaatagcaaagcta-tgtttgaccttttggccattttttgggc-atagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
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--------------------------gtttgtttgaattagaagtaaatattttcatttccataccccgtctggcctctttcattacatctattttccactctgtagGAACGAAAAACTTATGATGAAAGATTCATCCGAATGGACACAAAGAGGCTCTGTGAGTTGACCTCTGCCGCTGACAGTTTGCAGCTGAAACCTTTGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctagtttgaatagcaaagctatgtttgaccttttggccattttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
gtttgac putative branch site (score: 4)
ccatttttt putative PPT
atttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcacatatctaacttatcattttctttttctgattagatgttcttttgctagtttgaatagcaaagctatgtttgaccttttggccattttttgggcatagGAGCGGAAATCTTTTGATGAGAAGTTCATTAGAATGGATACAAAGAGGCTATGTGAGTTGACATCTGCTGCTGACAGCCTCCAATTGAAGCCTTTGGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC