Sequence
atgc intronic sequence ATGC exonic sequencegtttgaacatttccattcatttgaagcatacaactttcggtgttgagtccattttcgacatattcttttccattaagactacatattagcttgttgtaaagcgggcaagtataatgatcttgcagGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 7
gtttgaacatttccattcatttgaagcatacaactttcggtgttgagtccattttcgacatattcttttccattaagactacatattagcttgttgtaaagcgggcaagtataatgatcttgcagGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
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--------------------------------------------------gttagtaactttaaattatttattgatg-tacttgatcctatgtttctatactcataatttgtat---cttgcagGCATCATCAACAGGGTAGGTGGCAAGCAAGAATTGGCCGTGTAGCTGGAAACAAAGATTTATACTTGGGAACATTCG
upper sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G33240.1 (Glycine max), 3'ss of exon 7
gtttgaacatttccattcatttgaagcatacaactttcggtgttgagtccattttcgacatattcttttccattaagactacatattagcttgttgtaaagcgggcaagtataatgatcttgcagGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
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--------------------------------------------gtttgaaacttcaaatcatt-tagcatattgatgc-acttgatactgtgtttctatacttataatttgtat---cctgcagGCATCATCAACAGGGTAGGTGGCAAGCAAGAATTGGCCGTGTAGCTGGAAACAAAGATCTTTACTTGGGAACATTCG
upper sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 5
gtttgaacatttccattcatttgaagcatacaactttcggtgttgagtccattttcgacatattcttttccattaagactac-atattagcttgttgtaaagcgggcaagtataatgatcttgcagGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
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-------------------------gtttgtactttaaaataataa-tttatcatcattg-atgtgctactgtgtaatttatgatccctgtttctcatatggtttatactttt--tgatccttcagGCATCACCAACAGGGTAGATGGCAAGCAAGAATTGGCCGAGTTGCGGGAAACAAGGATCTATACTTGGGAACATTTT
upper sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 6
----------------------gtttgaacatttccattcatttga-agcatacaactttcggtgttgagtccattttcgaca-tattcttttccattaagactacatattagcttgttgtaaagcgggcaagtataatgatcttgca-gGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
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gtaagtccaaaagcaaaaactctttaaaatcttatcaatggttttatattatgtttcttt-gatggtaaccagagtttaaaaactgatataacacagGAAGAGTAGCGGTT--TCTCTAGAGGAGCTTCGATATACCGAGGTGTTACAAGGCATCATCAACAAGGACGTTGGCAAGCAAGGATTGGCCGAGTTGCTGGG----------------------------
upper sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 6
---------gtttgaacatttccattcatttgaagcatacaactttcggtgttgagtccattttcgacatattcttttccattaagactacatattagcttgttgtaa--agcgggcaagtataatgatcttgca-gGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
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gtgagaatcaaattaagatttacatatatgttcttgatttcaaaattggaatatttccaacttttggttaatgtaaatgtttcagGAAAA-GTAGCGGTTTTTCGAGAGGAGCTTCAATATATAGAGGTGTCACAAGGCATCATCAACAAGGTCGCTGGCAAGCAAGAATCGGCCGTGTCGCAGGA---------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattaagactacatattagcttgttgtaaagcgggcaagtataatgatcttgcagGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
tacatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaacatttccattcatttgaagcatacaactttcggtgttgagtccattttcgacatattcttttccattaagactacatattagcttgttgtaaagcgggcaagtataatgatcttgcagGCATCATCAACAAGGTCGATGGCAAGCAAGGATAGGTCGAGTTGCTGGAAATAAAGACCTGTACCTGGGGACATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA