Sequence
atgc intronic sequence ATGC exonic sequence...tgaaattctcagcacatttgtatattttggaaattttttgtatgcacttccagcagtgttagctagattctaaattttgtttctaacccttgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g73680.1 (Oryza sativa), 3'ss of exon 5
----tgaaattctcagcacatttgtatattttggaaattttttgtatgcacttccagcagtgttagctagattctaaattttgtttctaaccct-tgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
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aaactgatttttttggtagaactatctacac--ggtattgtttcggtttatttcttgta---cttggtcccttcttgttcatattataacctcgactctattcagGTGGGTTCGAATTCGATGCAAGGGGCGGGTGCACCAACCATGTTCCATGCTATGAGACGGATTGTCGATTCCCTGATGCATCAATCTATGGGAGAGGGTG
upper sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G061127_T01 (Zea mays), 3'ss of exon 1
-tgaaattctcagcacatttgtatattttggaaattttttgtatgc-acttccagcagtgttagctagattctaaattttgtttctaacccttgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
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aactggccacaagcaagaattagaacaccagtattccaaggaatgctactttttttaat--tgggtaatttgattattcatgttcatacctgcaatattcagGTGGGTTCAGATTCAATGCAAGGGGCTGGTGCACCAACCATGTTCCAGGCTATGAGACGAATCATCGATTCCTTGATGCATCAGTCGATGGGGGAGGGAG
upper sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G32790.2 (Glycine max), 3'ss of exon 3
tgaaattctcagcacatttgtatattttggaaattttttgtatgcacttc--cagcagtgt-tagctagattctaaattttgtttctaacccttgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
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--aaaataggattttccctgt-tacaatgcatatttgttcatcacagtatgatggcattttactgttgatttctcaatgctatgtctaactgctgctatttagGTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCCATGAGACGTATAGTTGGTGACTTAGCAAATAACTATGTTAGTGAAGGCT
upper sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G34800.1 (Glycine max), 3'ss of exon 4
--tgaaattctcagcacat-ttgtatattttggaaattttttgtatgcacttccagcagtgt-tagctagattctaaattttgtttctaacccttgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
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gttagagttgttacagcttactatgcattttt----ttttaattacagtatgatgacattttgctgttgatttctcaatgctatgtctaactgctgctatttagGTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCCATGAGACGTATA------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttccagcagtgttagctagattctaaattttgtttctaacccttgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
ttctaac putative branch site (score: 1)
cccttgtt CT-rich tract
attctaaattttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaattctcagcacatttgtatattttggaaattttttgtatgcacttccagcagtgttagctagattctaaattttgtttctaacccttgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
- - - -ctcagca
- - - - - - - - - - - - - - - - - - - - - - cacttcc