Sequence
atgc intronic sequence ATGC exonic sequencegtaaaatgtagctattgtatgtttctagtccttttttaattgcattggcttgagctatcaacttcttgccgagtgttcaaactaactcatgattgtctgtatgaaagtgtactatgcatgtttaacatgatagaaattttaccttctcagGTAAGAAGGGAGAAAGCAGTATATGATACACTGAACATGCTAAATTTTGATGTTACAAAAAAGTGTCTTGTTGGAGAGGGCTGGTGCCCAATATTTGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 8
gtaaaatgtagctattgtatgt-ttctagtccttttttaattgcattggcttgagctatcaacttcttgccgagtgttcaaactaactcatgattgtctg--tatgaaagtgtactatgcatgtttaacatgatagaaattttaccttctcagGTAAGAAGGGAGAAAGCAGTATATGATACACTGAACATGCTAAATTTTGATGTTACAAAAAAGTGTCTTGTTGGAGAGGGCTGGTGCCCAATATTTGCAA
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gtaagaattagctactgaatatattcttgttccttgtga--tgtagctgcatggcattcctaatacttgatctgcctttg---caagtgatgggtattttattatgaacctatagctctcattcttatcatcttg------------tcctagGTAAGAAGAGAGAAGGCTGTGTATGATACACTGAACATGCTAAATTTTGATGTCACCAAAAAATGTCTTGTTGGAGAGGGCTGGTGCCCTATATTTGCAA
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G15730.1 (Glycine max), 3'ss of exon 8
gtaaaatgtagctattgtatgt-ttctagtccttttttaattgcattggcttgagctatcaacttcttgccgagtgttcaaactaactcatgattgtctgtatgaaagtgtactatgcatgtttaacatgatagaaattttaccttctcagGTAAGAAGGGAGAAAGCAGTATATGATACACTGAACATGCTAAATTTTGATGTTACAAAAAAGTGTCTTGTTGGAGAGGGCTGGTGCCCAATATTTGCAA
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gtaagaattagcttctgaatatattcttgttccttgtga--tgtaactgcaaggcattcctaatacttgatcagtgtttg---caagtgatgaatattt-tatta---tgaacca---atagctctcgttcttatcatcttgtcct---agGTAAGAAGAGAGAAGGCTGTGTACGATACACTGAACATGTTAAATTTTGATGTCACCAAAAAATGCCTTGTTGGAGAGGGCTGGTGCCCTATATTTGCAA
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G04970.1 (Glycine max), 3'ss of exon 8
gtaaaatgtagctattgtatgtttctagtccttttttaattgcattggcttgagctatcaacttcttgccgagtgttcaaactaactcatgattgtctgta-tgaaagtgtactatgcat-gtttaacatgatagaaattttaccttctcagGTAAGAAGGGAGAAAGCAGTATATGATACACTGAACATGCTAAATTTTGATGTTACAAAAAAGTGTCTTGTTGGAGAGGGCTGGTGCCCAATATTTGCAA
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gtaagagtttgcttctgcatgtcttgttgtgtgagatatttattttgact-gcgtt-ttaactacaaaccaatcctaatatctgatcaacatgtacaagtaatggatatctattttgaaccaatagatctcatccttatcactttgtcctagGTAAGAAGAGAGAAGGCTGTGTATGATACACTGAACATGTTAAACTTTGATGTCACAAAAAAATGTCTTGTTGGAGAGGGCTGGTGTCCTCTGTTTGCAA
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G40430.1 (Glycine max), 3'ss of exon 8
gtaaaatgtagctattgtatgtttctagtccttttttaattgcattggcttgagctatcaacttcttgccgagtgttcaaactaactcatgattgtctgta-tgaaagtgtactatgcatgtttaacatgatagaaattttacct--tctcagGTAAGAAGGGAGAAAGCAGTATATGATACACTGAACATGCTAAATTTTGATGTTACAAAAAAGTGTCTTGTTGGAGAGGGCTGGTGCCCAATATTTGCAA
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gtaagattttgcttct-tgtgtcttgttgtgtgagatatttattctgact-gtgtt-ttaactacatatcaatcctaatatctgatcaacatgtagaagtaatggatatctattttgaaccaatag-atcttatccttatcaccttgtcctagGTAAGAAGAGAGAAGGCTGTGTATGATACGCTGAACATGTTAAACTTTGATGTCACAAAAAAATGTCTTGTTGGAGAGGGCTGGTGTCCTCTGTTTGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtatgaaagtgtactatgcatgtttaacatgatagaaattttaccttctcagGTAAGAAGGGAGAAAGCAGTATATGATACACTGAACATGCTAAATTTTGATGTTACAAAAAAGTGTCTTGTTGGAGAGGGCTGGTGCCCAATATTTGCAA
gtttaac putative branch site (score: 3)
ttttaccttctc putative PPT
tttaacatgatagaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaatgtagctattgtatgtttctagtccttttttaattgcattggcttgagctatcaacttcttgccgagtgttcaaactaactcatgattgtctgtatgaaagtgtactatgcatgtttaacatgatagaaattttaccttctcagGTAAGAAGGGAGAAAGCAGTATATGATACACTGAACATGCTAAATTTTGATGTTACAAAAAAGTGTCTTGTTGGAGAGGGCTGGTGCCCAATATTTGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG