Sequence
atgc intronic sequence ATGC exonic sequence...atgaacaagtcatggctatatgattttaatattcaagaaactgccaattatgagaaggtgagaaagtttctttatgccatcagatgctttgttgtcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os08g44015.1 (Oryza sativa), 3'ss of exon 7
-atgaacaagtcatggctatatgattttaatattcaagaaactgccaattatgagaaggtgagaaagtttctttatgccatcagatgctttgttgtcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
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gattttcttgtatgagtaatataagtatgttgtctatttagtttgtagtggtttccttttttttccttttccctaaacagtctttctcttgggttgc-cagATTTGAACCTGATATGCTTGCATTTTCGGGGTGCTATTATGGTGGTGGAGAAAAAGAAAGAAAAGAGCTTGGTGCAATACGGAAGAGATGGAAAACCTTG
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
atgaacaagtcatggctatatgatt-ttaatattcaagaaactgccaattatgagaaggtgagaaagtttctttatgccatcagatgctttgttg-tcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
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gtgaaatatatcttgttacttctttattactattccgtacaacattagct-cgttttgtttctatttcttgaccaagacat-ggttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G02010.1 (Glycine max), 3'ss of exon 7
atgaacaagtcatggctatatgattttaatattcaagaaactgccaattatg-agaa-----ggtgagaaa--gtttctttatgccatcagatgc--tttgttgtcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
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----------tgtggcttttacccttttgcattcaagatgcagttaaataggtagaataacggatgacaagtgaataatttctaaaattgattgcctttttttgctacagATTTGAACCTGATATGCTTGCATTTTCTGGATGTGATTATGGTGGAGGGGAGAAGGAGCAGAAGGAACTGGGTGCAATAAGAAGGAGGTGGAAGACATTA
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G02110.1 (Glycine max), 3'ss of exon 6
atgaacaagtcatggctatatgattttaatattcaagaaactgccaattatg------agaaggtgagaa--agtttctttatgccatcagatgc--tttgttgtcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
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----------aatggcttttatacttttacattcaagatgcagttaaataggtagaataacagatgacaagtgaataatttctaaaattgattgcctttttttgctacagATTTGAACCTGATATGCTTGCATTTTCTGGATGTGATTATGGTGGAGGGGAGAAGGAGCAGAAGGAACTGGGTGCAATAAGGAGGAGGTGGAAGACATTA
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G76270.1 (Arabidopsis thaliana), 3'ss of exon 6
atgaacaa-gtcatggctatatgattttaatattcaagaaactgccaattatgagaaggtgagaaagtttctttatgccatcagatgctttgtt---gtcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
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atttttgatattctagtca-acaattatgatattttacat-ttacc--tcttgaatctctataaatactagtgtttgacgcaagtgatattgattgtgttgcagGTATGAACCTGATATGCTTGCATTCTCGGGATGCTATTATGGTGGTGGTGATAAGGAAAGGAGAGAACTTGCAGCAATTAGAAGGAGATGGAAAACATTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattatgagaaggtgagaaagtttctttatgccatcagatgctttgttgtcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
ctttgtt CT-rich tract
tttctttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaacaagtcatggctatatgattttaatattcaagaaactgccaattatgagaaggtgagaaagtttctttatgccatcagatgctttgttgtcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- gaacaag
- - - - -tcatggc
- - - - - - - - - - - - - - - - -caagaaa
- - - - - - - - - - - - - - - - - - - - ctgccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccatca
