Sequence
atgc intronic sequence ATGC exonic sequencegtaattcagtaaggtttaatccaatctagattgaatgtaaaagggcatattactttggagtactaataagtttgcttgttttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G17050.1 (Glycine max), 3'ss of exon 4
-------------------------------gtaattcagtaaggtttaatccaatctagattgaatgtaaaag-ggcatattactttggagtactaataagtttgcttgtt-ttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
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gtaaataatttcactcaaaaagtaaaaaaaaacaatgacacatggttaacttggactttaatttgattcattgctagctcaattctcacatgtgtacacttttttcttcttcatatagGACACTTGACAGCAATGAGTGATGTGTACAGTTTTGGAGTTGTGCTCTTGGAGCTTCTAACAGGAAGAAGGTCAGTGGACAAAGGGCGCCCACAAAGAGA
upper sequence: Vv11s0016g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G05660.1 (Glycine max), 3'ss of exon 4
--------------------------------gtaattcagtaaggtttaatccaatctagattgaatgtaaaagggcatattactttggagtactaataagtttgcttgttttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
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gtaaataatttcacatcaagaagtaaaaaacaatgacaggttgacttggagtttaatttttaactcat-tgctagctcaaatctcacacgtgtacatttttttcttcttccgtatagGACACTTGACAGCAATGAGTGATGTGTACAGTTTTGGAGTCGTGCTCTTGGAGCTTCTAACAGGACGAAGGTCAGTGGACAAAGGGCGCCCACAAAGAGA
upper sequence: Vv11s0016g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G19600.1 (Glycine max), 3'ss of exon 4
---------gtaatt-cagtaaggtttaatccaatctagattgaatgtaaaagggcatattactttggagtactaataagtttgcttgttttc-----agGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
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tttattctaataataataataatatgtaattagcagttaatcatccacttgggctagaattcttgtagctaactcaaatttataataatttttttgatagGTCACTTGACAGCAATGAGTGACGTGTATAGTTTTGGAGTAGTGCTGTTGGAGCTGCTAACAGGGAGAAGGTCAGTGGACAAAAATCGCCCTCCAAGGGA
upper sequence: Vv11s0016g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G08110.1 (Glycine max), 3'ss of exon 4
------gtaattcagtaaggtttaatc--caatctagattgaatgtaaaagggcatattactttggagta-------ctaataagtttgcttgttttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
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atccaaataataatataatatataattagtagttaatcatgcacttgatgagctagaattcttgtagctaactcaaatttacaatactttttttttatagGTCACTTGACAGCAATGAGTGATGTGTATAGTTTTGGAGTAGTGCTATTGGAGCTGTTAACAGGAAGAAGGTCAGTGGACAAAAACCGGCCTCCAAGGGA
upper sequence: Vv11s0016g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ22709 (Selaginella moellendorffii), 3'ss of exon 5
gtaattcagtaaggtttaatccaatctagattgaatgtaaaagggcatattactttggagtactaataagtttgcttgttttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
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--------gtaag-ttca--caaagaaagaaaaaaaattgagagttcttgaacttaaaagga-tcgtacctttgttt-cctccagGTCACTTGACAGCCAGGAGCGATGTTTACAGCTTTGGAGTTGTCTTCCTGGAGATGCTAACTGGCAGACGATCCATGGACAAGTCTAGACCCACTGGCGA
upper sequence: Vv11s0016g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ19239 (Selaginella moellendorffii), 3'ss of exon 5
gtaattcagtaaggtttaatccaatctagattgaatgtaaaagggcatattactttggagtactaataagtttgcttgttttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
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--------gtaag-ttca---caaggaaagaaaaaaacttgagagttcttgaacttaaaaggatcgtacctttgttt-cctccagGTCACTTGACAGCCAGGAGCGATGTTTACAGCTTTGGAGTTGTCTTCCTGGAGATGCTAACTGGCAGACGATCCATGGACAAGTCTAGACCCACTGGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaatgtaaaagggcatattactttggagtactaataagtttgcttgttttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
tactaat putative branch site (score: 1)
cttgttttc putative PPT
atattacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcagtaaggtttaatccaatctagattgaatgtaaaagggcatattactttggagtactaataagtttgcttgttttcagGGCATTTGACAGCAATGAGCGATGTTTACAGCTTTGGAGTGGTGCTCTTAGAGCTACTAACTGGGAGAAGATCAGTGGATAAGACCCGGCCTAACAGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA