Sequence
atgc intronic sequence ATGC exonic sequence...tgaaaaagtagttgtctaacaattaaacttcaacgcttcttattgttgagttgttctgataataagttcctaatagacttctaccatgttatttttccagGTGCTAAGAGATGATTCTCTACCTGTTTGCATGCCAGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAAGATAGTAATAATGCTCCTGCAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G00530.1 (Glycine max), 3'ss of exon 9
tgaaaaagtagttgt-ctaacaattaaacttcaacgcttcttat-tgttgagttgttctgataataagttcctaatagacttctaccatgttattttt--ccagGTGCTAAGAGATGATTCTCTACCTGTTTGCATGCCAGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAAGATAGTAATAATGCTCCTGCAACAA
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---gctagtaattgaatttatgatattattccactaaccatcatctaatgcatcatcagcttgttttatttattttat-tttattttattttatttttgagcagGTGCTGAGGGATGATTCTCTTCCTGTCTGCTTGCCTGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAGGAGAGTACTGTTGCTCCAGCAACAA
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G00600.2 (Glycine max), 3'ss of exon 9
tgaaaaagtagttgtctaacaattaaacttcaacgcttcttattgttgagttgttctgataataagttcctaatagacttctacc-atgttattttt--ccagGTGCTAAGAGATGATTCTCTACCTGTTTGCATGCCAGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAAGATAGTAATAATGCTCCTGCAACAA
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taattgaat-gttatcaaacagaaatgatattatttcactaaccatcatctaatgc--atcatcagcttgctttatttatttatttattttatttttgtgcagGTACGGAGGGATTATTATCTTCCTGTCTACTTGCCTGACGAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAGGAGAGTACTGTTGCTCCTGCAACAA
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G11490.2 (Glycine max), 3'ss of exon 9
tgaaaaagtagttgtctaacaattaaacttcaacgct-tcttattgttgagttgt-tctgataataagttcctaatagacttctaccatgttatttttccagGTGCTAAGAGATGATTCTCTACCTGTTTGCATGCCAGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAAGATAGTAATAATGCTCCTGCAACAA
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agctaccatcattat-tgttaaccaagattgaatgttatagttaaattcagttgtatctattcttaaaatattggt-gcttgttttatttttattgatgcagGTACTGAGGGATGATTCTCTTCCTGTTTGTTCACCTGACAAAGTACACGATGTGAAATTAGGCGACTTAGCGGAGGAGAGTAATGTTGCTCCTGCAACAA
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G03640.1 (Glycine max), 3'ss of exon 9
-tgaaaaagtagttgtctaacaattaaacttcaacgcttcttattg--ttgagttgt-tctgataataagttcctaatagacttctaccatgttatttttccagGTGCTAAGAGATGATTCTCTACCTGTTTGCATGCCAGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAAGATAGTAATAATGCTCCTGCAACAA
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tagctaccatcattat-tgttaaccaagattgaaca-ttataattaaattcagttgtatctattaaaatttttgtgcttgttttgttttttctgatgca--cagGTACTGAGGGATGATTCTCTTCCTGTTTGTTCACCTGACAAAGTACATGATGTGAAATTGGGCGACATAGTGGAGGAGAGTAATGTTGCTCCTGCAACTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgagttgttctgataataagttcctaatagacttctaccatgttatttttccagGTGCTAAGAGATGATTCTCTACCTGTTTGCATGCCAGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAAGATAGTAATAATGCTCCTGCAACAA
tcctaat putative branch site (score: 2)
ttatttttcc putative PPT
atgttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaaaagtagttgtctaacaattaaacttcaacgcttcttattgttgagttgttctgataataagttcctaatagacttctaccatgttatttttccagGTGCTAAGAGATGATTCTCTACCTGTTTGCATGCCAGACAAAGTGCATGATGTGAAATTGGGTGACTCAGCTGAAGATAGTAATAATGCTCCTGCAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
tgaaaaa
- - - - - - - - - - aattaaa
- - - - - - - - - - - - - -cttcaac