Sequence
atgc intronic sequence ATGC exonic sequence...taaaagtcattgcttgatacaatctacaaattctcattgtttgcacttcctccattgtgaacagtaccaaattctaattaattctgcccatgaacttcagGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G006977_T01 (Zea mays), 3'ss of exon 4
taaa-agtcattgcttgatacaatctacaaattctcattgtttgcacttcctccattgtgaacagtaccaaattctaattaattctgcc-catgaacttca-gGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
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tagatacccatgaccatgagtaacaatcaattacatgatatctcgagttattt-gctatttac--tcccattttgaatttgactctttaacatgttcttaaagGTGGCCAAAGAGAGTGCTGACGTCATCATTCTTGATGACAACTTCTCCACAATTGTCACTGTTGCAAAATGGGGTCGATCAGTTTACATCAACATTCAGA
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G17450.1 (Glycine max), 3'ss of exon 5
-----taaaagtcattgcttgatacaatctacaaattctcattgtttgcacttcctccattgtgaacagtaccaaattctaattaattctgcccatgaacttcagGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
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ccaattatttgaaaccagaagaagagaaagggaaattttgatcaaatgatcttatt--gttctaaagcaaggagaat---ggctaatttcataatttgtgtgcagGTTGCTAAAGAAAGTGCAGATGTCATAATTCTGGATGATAATTTCTCCACAATAGTGACAGTGGCCAAATGGGGACGTTCAGTTTACATAAATATTCAAA
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G22420.1 (Glycine max), 3'ss of exon 4
----taaaagtcattgcttgatacaatctacaaattctcattgtttgcacttcctccattgtgaacagtaccaaattctaattaattctgcccatgaacttcagGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
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aagagaaagggaaatggtaacaataacgcac---ctcaatttgatcaaatgaccttaatcttctaaaacaaggagaa-tggctaatttcataatttgtgtgcagGTTGCTAAAGAAAGTGCAGATGTCATAATTCTGGATGATAATTTCTCCACGATAGTGACAGTAGCCAAATGGGGACGTTCAGTTTACATAAATATTCAAA
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G40130.1 (Glycine max), 3'ss of exon 4
-taaaagtcattgcttgatacaatctacaaattctcattgt-ttgcacttcctccattgtgaacagtaccaaattctaattaattctgcccatgaac-ttcagGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
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gtgagtgcaatactataatatgtttccctttgtgctgctacattttagtcatttaactcttaat--tttctactgcaagctaatttc-tcaatgtatgttcagGTTGCAAAAGAAAGTGCAGATGTCATAATTCTGGATGATAACTTCTCCACGATAGTAACTGTGGCCAAATGGGGACGTTCGGTTTACATAAATATTCAGA
upper sequence: Vv07s0129g00110.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G05190.2 (Glycine max), 3'ss of exon 4
-------------------------------------------taaaagtcattgcttgatacaatctacaaattctcattgtttgcacttcctccatt--gtgaacagtaccaaattctaattaattctgcccatgaac-ttcagGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
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gtgagtgcaatgctatgcaatgtttccctttgtgaaccattcattctacccaccaaaggaaaagaaaaggaaatgttgtgctgctacattttagtcacttaactcttaattttgtactgcaagctaatttcttaatatatgttcagGTTGCAAAAGAAAGTGCAGATGTCATAATTCTGGATGATAACTTCTCCACGATAGTAACAGTGGCCAAATGGGGACGTTCGGTTTACATAAATATTCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcctccattgtgaacagtaccaaattctaattaattctgcccatgaacttcagGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
aaattctaattaattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaagtcattgcttgatacaatctacaaattctcattgtttgcacttcctccattgtgaacagtaccaaattctaattaattctgcccatgaacttcagGTGGCTAAAGAGAGTGCTGATGTAATAATCTTGGATGATAATTTCTCCACAATTGCGACTGTGGCCAAATGGGGACGTTCAGTCTACATAAATATTCAAA
- - - -cattgct
- - - - - - - -gatacaa
- - - - - - - - - - - - -acaaatt
- - - - - - - - - - - - - - - - - - -tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgccc