Sequence
atgc intronic sequence ATGC exonic sequencegtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaaatgcaaagtgtgctttgatatgaatgtgtgtttttaaaatatgaatttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g04200.1 (Oryza sativa), 3'ss of exon 4
gtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaaatgcaaagtgt--gctttgatatgaatgtgtgtttttaaaatatgaatt--tgacactgcttac-tttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
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---------gtaatatataatatgtttat-ccattcattagtt---tctagaacaaaacaaagttttaactttgaactgt---tctgctattaaatcatcagttcatggtaaagaaaccacttgaaattttcttgtagGTTAATGCTTCCAGCAGACCCAAAAATAGTGCTCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCAGTAATCACTGAGGAAGTCACTG
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g04010.1 (Oryza sativa), 3'ss of exon 4
gtaaccttttttgtttctgac-atttttgtgttagagatgaattacatttattcaaatgcaaagtgtgctttgatatgaatgtgtgtttttaaaatatgaatttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
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gtaatatataatatgtttatccattcattagtttctagaacaaaacagatttttaactttgaaac-tgttctggtattaa-----atcatcagctcatggtaaagaaaccactt-----gaaattttcttgtagGTTAATGCTTCCAGCAGACCCAAAAACAGTGCTCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCAGTAATCACTGAGGAAGTCACTG
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G005308_T01 (Zea mays), 3'ss of exon 6
gtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaa-atgcaa-agtgtgctttgatatgaatgtgtgtt-tttaaaatatgaat-ttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
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-------------gttctaaaaacaatgcattttattctacctttatgttttaactatgcattattaccatttgatgataatttatttcatttcagttgtaaatattaataaaccatactgttcttttt------agGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G09590.1 (Glycine max), 3'ss of exon 5
gtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaaatgcaaagtgtgctttgatatgaatgtgtgtttttaaaatatgaatttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
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gtaatacagta-gtcccttacttttttttacctgattt---ttttgtggattgcattccttggccctttttgcta-----atatggtgttagattattgatt-------gttgaattt--------ataacagGTAACTGCTGCAAAGAGACCAAAGAATAGTGCATTGGAAGTTGATCTGGACTTTGAGCATAATGTGAGGCCTGCTCCTGTAATCACTGAAGAAGTTACAG
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G02340.1 (Glycine max), 3'ss of exon 4
gtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaaatgcaaagtgtgctttgat---atgaatgtgtgtttttaa--aatatgaatttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
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---------------------------gtaatacag-tagtccccctttttttttacctgatttattcgttggttgcatttgttggcccttttagctaatatggtgttg-cattattaattgttgaattt-ataacagGTAACTGCTGCAAAGAGACCCAAGAATAGTGCATTGGAGGTTGATCTGGACTTTGAGCACAATGTGAGGCCTGCTCCTGTAATCACTGAAGAAGTTACAG
upper sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G66540.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaaatgcaaagtgtgctttgatatgaatgtgtgtttttaaaatatgaatttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
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------------------------------gtagcca-gacatgttttccctcacaattaaactgtaa---aagaggcatct-tgctttctgtagctaaatttatgtctg---attttacttgttgta---agATAACTGCGGCAAAGAGGCCAATGAATAGTGCTCTAGAAGTTGATTTAGATTTTGAGCACAATGCCAGGCCTGCTCCTGTAATCACAGAAGAAGTCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgtgtttttaaaatatgaatttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
ttttt CT-rich tract
tgtttttaaaatatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaaatgcaaagtgtgctttgatatgaatgtgtgtttttaaaatatgaatttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG