Sequence
atgc intronic sequence ATGC exonic sequence...gatcctgtcccattgatatgatatgaaatgtatttgatttgatgttgacatttgagattccatatgaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os10g42110.1 (Oryza sativa), 3'ss of exon 5
--------------------------------------------------------------------------gatcctgtcccattgatatga-tatgaaatgtatttgatttgatgt--tgacatt-tgagattccatatgaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
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gtaggaatttacacatgatccttattaccgcactcatgggcaccttactctattgatgttttccagcaaaaatgaaacatgtcaacttatttcaagcttgctatatatttactcccaagtactaacattgtttgactgcac-cgaac---aatttgtgcatgacacttgtatg-acagGCAGAGTCATCGCCGAGAGTGTGATATATAGCTATGGAACAGTTCTTTTGGATCTTTTGAGTGGGAAGCACATACCTCCTAGCCAT
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G06140.1 (Glycine max), 3'ss of exon 5
--gatcctgtcccattgatatgatatgaaatgtatttgatttgatgttgacatttgagattccatatgaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
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tacctgatattccattgtttgtttcagaactgtcttattagaagttttgccaactataattaatgataatatgatacttaa-caaataacaacacc-tgcagGCAGGATAATCCCAGAGAGTGTGATCTACAGTTATGGAACTGTTCTTCTGGATCTTCTAAGTGGCAAGCATATTCCTCCAAGCCAT
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G16420.1 (Glycine max), 3'ss of exon 5
gatcctgtcccattgatatgatatgaaatgtatttgatttga--tgttgaca--tttgagattccatatgaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
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-attgttttac-ctgatgttccattgattgtttcagaactgtcttattagaagtcttgctaactataattaatgacaatatgat-acttaacaacacc-tgcagGCAGGATAATCCCAGAGAGTGTGATCTACAGTTATGGAACTGTTCTTCTGGATCTTTTAAGTGGCAAGCACATTCCTCCAAGCCAT
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G46570.1 (Arabidopsis thaliana), 3'ss of exon 4
gatcctgtcccattgatatgatatgaaatgtatttgatttgatgttgacatttga--gattccatat-gaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
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---------------gtaaaattcttgatct-tgtgaatcgtagtcgaagacaaaccaattcattattgaagattaaagttctctggtttttc--ttttgcagGTAGAGTCATTCCTGAAAGTGTGATATTCAGTTATGGAACTATTCTTTTAGATCTTTTAAGCGGCAAACACATTCCACCTAGCCAT
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S178_86V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------------------------------------------------------------------gatcctgtccc--attgatatgatatgaaatgtatttgatttgatgttgacatttgagattccatatgaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
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gtaccaacttggcatacacccccccatgagtacttaagaactggtaacgaagtctgaagcttggtaatgtatttgcgcaattctggacattattacggacctacccaaaattaccaacattcaaagcagccctgg-atttagtatgcttactttggattcctgagattcttgtattcaaatttgcagGTAGGGTGACACCTGAAAGTGTTATTTACAGCTATGGAACTGTTCTACTAGATCTGTTGAGTGGGAAGCATCTACCTCCTAGTCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgacatttgagattccatatgaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
aaatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatcctgtcccattgatatgatatgaaatgtatttgatttgatgttgacatttgagattccatatgaaagcaaatttgatcaggtcatgaaactgtgcagGGAGGGTCATTCCAGAGAGTGTGATATACAGTTATGGAACAGTTCTATTGGACCTGTTGAGTGGGAAGCATATCCCTCCAAGTCAT
- -cctgtcc
- - - - - - - - - - - - - - - - - - - - - tgttgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtcatg