Sequence
atgc intronic sequence ATGC exonic sequence...ttgtaataagtactgctgccaacagtttattcaaacaataagactggttttgccttgttggtgtatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G144083_T01 (Zea mays), 3'ss of exon 3
--------------------ttgtaataa-gtactgctgccaacagtttattcaaacaataa--gactggttttgccttgttggtgtatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
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gtatgaaataatctcatctattgtgagggcgtgcaagtttttttcctttttaaaaaaggtcattgaattgttcagaaatgctaaactatctcatatgccatggtacttggt---acttcgtagGTCGACTGCATCGTTTTTGACAAGACAGGGACGCTAACTATTGGGAAGCCTGTCGTTGTTGACACAAGGCTTCTCAAAAATATGGTCTTGCGTGAATTCT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G143512_T01 (Zea mays), 3'ss of exon 3
ttgtaataagtactgctgccaacagtttattcaaacaataagactggttttgccttgttggtgtatcaaagataatcttggagctgatttg--atcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
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gtatggaaacttgtcatgataat-gtttatgcgcttgcttaaaacagcgctttcgagttagggataaactgacaacgcta---cttacacgacattttacagGTAAACTGCATCGTCTTTGATAAGACAGGAACGCTGACTGTCGGGAAGCCAGTCGTTGTCAACACCAGGCTTCTCAAAAACATGGTCTTGCGTGAATTCT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G42800.1 (Glycine max), 3'ss of exon 3
-ttgtaataagtactgctgccaacagtt--tattcaaacaataagactggttttgccttgttggtg-tatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
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cctacataaatttcactcaataacaaataatgtttagaaaagaacatgtttctagcattcctcgtaatatcaaattca--ctcacaacttac--gacattgcagGTGAATTGCATTGTGTTTGATAAGACAGGGACCCTCACAGTTGGGAAGCCAGTGGTTGTTACTACAAAACTCTTAAAAAAGACGTCACTTAGTAATTTCT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G42790.1 (Glycine max), 3'ss of exon 3
ttgtaataagtactgctgccaacagtttattcaaacaataagactggttttgccttgttggtgtatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
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nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntatttactcactcgtgaatatgtttatcttgtcttgtagGTGGACTGCATTGTTTTTGATAAGACGGGTACTCTCACTGTTGGGAAACCTGTGATAGTGAGAACAGAACTATTGACAAAAATGGTGCTCCAGGAGTTCT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G63440.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------ttgtaa--taagtactgctgccaacagtttattcaaacaataagactggttttgccttgttggtgtatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
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gttagtttagtgtgcagtaacttggtctatggctttgtaaacttacta-tactgtatatactttactcaggttctctggatcattt--cttttctgaaatggtgaa----acctgacagtttcaatgacggtgtagGTAAATTGCATTGTCTTTGACAAGACAGGAACTCTCACGATGGGGAAGCCCGTTGTTGTGAAAACAAAGCTCCTGAAAAACATGGTACTTCGAGAGTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttttgccttgttggtgtatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
aaagataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtaataagtactgctgccaacagtttattcaaacaataagactggttttgccttgttggtgtatcaaagataatcttggagctgatttgatcttgtagGTGGATTGCATCGTGTTTGACAAGACAGGTACCCTCACTGTTGGGAAGCCAGTAGTTGTTAGCACAAGGCTCTTGAAAAACATGGTACTTCAAGAATTCT
- - - - - tactgct
- - - - - - - - -gccaaca
- - - - - - - - - - - - - - - - aaacaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggagct