Sequence
atgc intronic sequence ATGC exonic sequence...ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 4
---ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatca-tgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
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tgctttgggagattgtctggacggagttatttt----tcttcctgcaccaggcaatgatttccactgggatgctttaatgaatggtctgtaattgtctctgcagGAAGTATATGATCAACAAAAAGAACTTATTTTACTTGCGGAGCGAGTTGTACTTGCAACTCTTGGGTTTGATTTGAATGTGCATCATCCATACAAGCCTT
upper sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G308570_T02 (Zea mays), 3'ss of exon 12
-ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgttt-cttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
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tctaaaggcaaggccagggctgctctttttttatgcaacttta-catcctgattactgtggcacacaacaataaccgagtctgtttgttttctttctt-cagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTTCTTGTAACACTTGGTTTTGATTTTAATGTGAACCATCCTTACAAGCCCT
upper sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AC233979.1_FGT009 (Zea mays), 3'ss of exon 3
----ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
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ttttttaaaggcaaggctaggacgactcttttt--atgcaattttac--gtcctgtttactgtggcacgcaaaataactgaggctgtttgttttgtttcttcagGAAGTATATGAACAACAAAAGGAACTTATTTTACTCGGGGAACGTGTTGTGCTTGTGACACTTGGTTTTGATTTGAATGTGAACCATCCTTACAAGCCCT
upper sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 4
------ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
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gtttattttctgcatgcaccagtttctatttggttcaaaagaaagccatttatgtaagagttgtttcaactgatattagtgcttgtactgcctat------tgcagGAAATCTATGATAAACAAAAAGAACTTATTTTACTTGGAGAGCGAGTTGTACTTGTAACACTTGGGTTTGACCTTAATATTAACCATGCCTATAAGCCCT
upper sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G41040.1 (Glycine max), 3'ss of exon 3
---ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
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aactgtggggatttatttcaaaataaaatttcttttgaacttatca-attttttcttacctctcttgtaatatattttctttt--catgcaattgtgacacagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC
upper sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G17960.1 (Glycine max), 3'ss of exon 3
---ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
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ttaactgtggatttatttcaaaataaaatttcttttgaacttatca-atttttccttacctctcttgtaatatatgtt--tttctcatgcaattgtggcacagGATGTGTATGAACAGCATAAAGAATTAATTTTACTGGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCATCATCCTTATAAACCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
tttttcatct CT-rich tract
atatgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
- - -ggaaata
- - - - - - - -cattgtc
- - - - - - - - - - - - - - - - ggtggtg