Sequence
atgc intronic sequence ATGC exonic sequence...tactatatgtatagagtttgaaaatttagatacatcatttattgtttgacatgcaatgaggttttgagatgttgatgttgatgtctagctgttcatgcagGCATTGATCAAATCGACTAACAGACTAAGGGATTCATTGCTTCCAAAAGAAGAACCAAAGTTGGCAATTCCCCTTTTATTGCTCATTGCTCAGCATCGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g06090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g68810.1 (Oryza sativa), 3'ss of exon 21
tactatatgtatagagtttgaaaatttagatacatcatttattgtttgacatgcaatgaggttttgagatg---ttgatgttgatgtctagctgttcatgcagGCATTGATCAAATCGACTAACAGACTAAGGGATTCATTGCTTCCAAAAGAAGAACCAAAGTTGGCAATTCCCCTTTTATTGCTCATTGCTCAGCATCGTT
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-----------------------gtcatgaggcaacatttcttcatt----cgcaatgccatgttgaagtccattcactaaagaaatatattttattttgtagGTTCTGACCAAGTCTACAAACAAATTGAGGGATTCTTTGCTTCCAAAAGAAGAACCTAAACTTGCCATTCCCCTTTTACTGCTTATTGCTCAGCATCGAT
upper sequence: Vv01s0011g06090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G05320.1 (Glycine max), 3'ss of exon 18
-tactat-atgtatagagtttgaaaatttagatacatcatttattgtttgacatgcaatgaggttttgagatgttgatgttgatgtctagctgttcatgcagGCATTGATCAAATCGACTAACAGACTAAGGGATTCATTGCTTCCAAAAGAAGAACCAAAGTTGGCAATTCCCCTTTTATTGCTCATTGCTCAGCATCGTT
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ctagtgttgaattttaaatctaattattgtggaa--ttattccttgtttaagatttaaacttgtgacttggtggttgacatggtatttaataataattgcagGCATTGATAAAGTCAACTAGCAGACTTCGTGATGCATTACTTCCAAAAGATGAACCAAAGTTGGCGATCCCCCTGTTACTGCTTATTGCTCAACATCGTT
upper sequence: Vv01s0011g06090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G34330.1 (Glycine max), 3'ss of exon 21
-tactatatgtatagagtttgaaaatttagatacatcatttattgtttgacatgcaatgaggttttgagatgttgatgttgatgtctagctgttcatgcagGCATTGATCAAATCGACTAACAGACTAAGGGATTCATTGCTTCCAAAAGAAGAACCAAAGTTGGCAATTCCCCTTTTATTGCTCATTGCTCAGCATCGTT
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ctagtgt-tgaattttaattctaattattgcggaattataccttgtttaagatttaaaaatgtgacttggtggttgacatggtatttaataataattgcagGCATTGATAAAGTCAACTAGCAGACTTCGAGATGCATTACTTCCAAATGATGAACCGAAGTTGGCGATCCCCCTGTTACAGCTTATTGCTCAACATTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacatgcaatgaggttttgagatgttgatgttgatgtctagctgttcatgcagGCATTGATCAAATCGACTAACAGACTAAGGGATTCATTGCTTCCAAAAGAAGAACCAAAGTTGGCAATTCCCCTTTTATTGCTCATTGCTCAGCATCGTT
tgttgat putative branch site (score: 4)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactatatgtatagagtttgaaaatttagatacatcatttattgtttgacatgcaatgaggttttgagatgttgatgttgatgtctagctgttcatgcagGCATTGATCAAATCGACTAACAGACTAAGGGATTCATTGCTTCCAAAAGAAGAACCAAAGTTGGCAATTCCCCTTTTATTGCTCATTGCTCAGCATCGTT
- - - - - - - - - -gaaaatt
- - - - - - - - - - - - - -agataca
- - - - - - - - - - - - - - - - - - - - - - - - acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtc