Sequence
atgc intronic sequence ATGC exonic sequence...aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagcattgaatttgaatatctattacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 4
---------------------------------aatcatgagatcaagagtt-tcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatga----gcattgaatttgaatatctatt-acagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
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gtgagttactcaattgttcaactctactactgagctcatattatgaaaattcctcatagccttcta----ggttgaactttaa--tatataattcatcaacttcatgactttgtattaccaccatatgtatgtcgatagGTGGTGCCATGATATTGGCCGGGAACAAGCTGCCAATAAGCCTCTTCTAAAAACAGTATTTCAG
upper sequence: Vv10s0116g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G390374_T01 (Zea mays), 3'ss of exon 4
---aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagca-ttgaatttgaatatctat---tacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
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gtgagtcaccctgtatgatattgttacgagttccccttagacttatttgttgaacctttagttatcacactacatacttaattttatctctatgtttatgtgtacagGTGGTGCCATGATATTGGCCGTGAACAAGCTGCCAATAAACCACTTCTAAAGACTGTATTTCAG
upper sequence: Vv10s0116g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G13380.1 (Glycine max), 3'ss of exon 4
-----aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagcattgaatttgaatatctattacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
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aataagaacaccatttcatggtttatgggagcttacatta-gacttatgcaaacattcaatccattttggacaatatttgaa--gatttt--attttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
upper sequence: Vv10s0116g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G02490.1 (Glycine max), 3'ss of exon 4
----aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagcattgaatttgaatatctattacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
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ataagaacactgtttcatggtttatgggagcttacatta-aacttacgctaacattcaatccattttggacaatat---tttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
upper sequence: Vv10s0116g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ31796 (Selaginella moellendorffii), 3'ss of exon 5
aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagcat-tgaatttgaatatctat-tacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
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--------------------------------------------------gtaagttgttgtagtacttcgtctgtttatgttcgtcagtactttcgtaaagGTGGTGTCATGATATTGGTCGAGAGCACGCAGCCAACAAACCTTTGCTGAAGACCGTCTTTCAG
upper sequence: Vv10s0116g00810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ38064 (Selaginella moellendorffii), 3'ss of exon 4
aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagcat-tgaatttgaatatctat-tacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
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--------------------------------------------------gtaagttgtcgtagtacttcgtctgtttatgttcgtcagtactttcgtaaagGTGGTGTCATGATATTGGTCGAGAGCACGCAGCCAACAAACCTTTGCTGAAGACCGTCTTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagggtatattgttatagaactatatgagcattgaatttgaatatctattacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
tatattgttatagaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagcattgaatttgaatatctattacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- -catgaga
- - - - - - - - - - -gcagaca
- - - - - - - - - - - - - - - - - - -ggtgatg