Sequence
atgc intronic sequence ATGC exonic sequence...atgttaattctcttctgaaattgtaagaaaaagcattggatggtgtgcatctctctttcattctttttaattatttgttgttaatgtatttgctcatcagGTGGGTATGATAAGGAAGAAAAAGCAGCTAGGGCTTATGATTTAGCGGCACTCAAGTATTGGGGTCCAACCACTCACATAAATTTCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g01370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g07940.1 (Oryza sativa), 3'ss of exon 4
------------------------atgttaattctcttctgaaattgtaagaaaaagcattgg----atggtgtgcatctctctttcattctttttaattatttgttgttaatgtatttgctcatcagGTGGGTATGATAAGGAAGAAAAAGCAGCTAGGGCTTATGATTTAGCGGCACTCAAGTATTGGGGTCCAACCACTCACATAAATTTCCCT
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gtaagatatcactactctcattggttctaaaagttcgcatgcaact-taggagtttccactagtagaattgtgaacattgttctttcctgcttactgcttcctggttgt-gccatggctgtttga-agGTGGCTATGACAAGGAGGAGAAGGCTGCAAGGGCTTATGATTTGGCAGCACTCAAGTACTGGGGTCCAACAACTCACATAAATTTTCCA
upper sequence: Vv09s0002g01370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G04260.1 (Glycine max), 3'ss of exon 4
-atgttaattct----cttctgaaattgtaagaaaaagcattggatggtgtgcatctctctttcattctttttaattatttgttgttaatgtatttgctcatcagGTGGGTATGATAAGGAAGAAAAAGCAGCTAGGGCTTATGATTTAGCGGCACTCAAGTATTGGGGTCCAACCACTCACATAAATTTCCCT
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gctactagatttgaagcattggaaagtgt--gctttagcctctgaggata-atttatcgcttttggcaaaaataattatatctctgtattgtatta--ttattagGTGGTTATGATAAGGAAGAAAAAGCAGCAAAGGCTTATGACTTAGCTGCAATCAAGTATTGGGGTCCAACAACTCACATAAATTTCCCT
upper sequence: Vv09s0002g01370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G00950.1 (Glycine max), 3'ss of exon 5
atgttaattctcttctgaaattgtaagaaa-aagcattggatggtgtgcatctctctttcattcttt--------ttaattatttgttgt--taatgtatttgct--catcagGTGGGTATGATAAGGAAGAAAAAGCAGCTAGGGCTTATGATTTAGCGGCACTCAAGTATTGGGGTCCAACCACTCACATAAATTTCCCT
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-------------tttgaagcattggaaagtgtgctttggcttctgaggataattttatcgcttttggcaaataattaaatttgtgttgtattattattattattattattagGTGGTTATGATAAGGAAGAAAAAGCAGCAAAGGCTTACGACTTAGCTGCACTCAAGTATTGGGGTCCAACAACTCACATAAATTTCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcatctctctttcattctttttaattatttgttgttaatgtatttgctcatcagGTGGGTATGATAAGGAAGAAAAAGCAGCTAGGGCTTATGATTTAGCGGCACTCAAGTATTGGGGTCCAACCACTCACATAAATTTCCCT
tgttaat putative branch site (score: 3)
tttgctc putative PPT
tttcattctttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttaattctcttctgaaattgtaagaaaaagcattggatggtgtgcatctctctttcattctttttaattatttgttgttaatgtatttgctcatcagGTGGGTATGATAAGGAAGAAAAAGCAGCTAGGGCTTATGATTTAGCGGCACTCAAGTATTGGGGTCCAACCACTCACATAAATTTCCCT
- - - - tctcttc
- - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - tggatgg