Sequence
atgc intronic sequence ATGC exonic sequence...aacctaatagtagtgttttttttcttctccttttaaaaacctgaggtttatatatttaatttttctggttaactgtattggggacttattccatttacagGATGATGAAGCTGTCAATATTTGGAACTTGAGAAAATGCAGTGCAGCAGGTCTTGATATCCTTTCAGATGTGTTTGGGGATGAGATTCTTCCAACATTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 11
-----------------------------aacctaatagtagtgttttttttcttctcctt--ttaaaaa----cctgaggtttat---atatttaatttt-----tctggttaactgtattgggg---------acttattccatttacagGATGATGAAGCTGTCAATATTTGGAACTTGAGAAAATGCAGTGCAGCAGGTCTTGATATCCTTTCAGATGTGTTTGGGGATGAGATTCTTCCAACATTGA
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gtatgttgtacttactctattgattgcttattctaattatttgattaattttcctgcccttatttaatagggtttgtgtagcttttgaaagatgaaatgataaaaatatgctttgctaatttgaagtcaaattttatttttcatatttacagGATGATGATGTTGTCAACACATGGAATTTACGGAAATGCAGTGCAGCTGCTCTTGATATTCTTTCAAATGTGTTTGGAGATGAGATCCTTCCAACTCTTA
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 11
-----------------------------aacctaatagtagtgttttttttcttctcct--tttaaaaacctg-----aggttt-----------atatatttaatttttctggttaactgtattggggacttatt----ccatttacagGATGATGAAGCTGTCAATATTTGGAACTTGAGAAAATGCAGTGCAGCAGGTCTTGATATCCTTTCAGATGTGTTTGGGGATGAGATTCTTCCAACATTGA
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gtatgttgtactttctctattgattgcttattctaattatttgattaattttcctgcccttatttaatagggtgtgtgtagcttttgaaagaaggaatgataaaaaatgctttgctaatttgaagtcaaactttatttttcctatttacagGATGACGATGTTGTCAACACATGGAATTTACGGAAATGCAGTGCAGCTGCTCTTGATATTCTTTCAAATGTGTTTGGAGATGAGATCCTTCCGACTCTTA
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S41_175V6.1 (Physcomitrella patens), 3'ss of exon 10
aacctaatagtagtgttttttttcttctccttttaaaaacctgaggtttatatatttaatttttctggtt-----aactgta-ttggggacttattccatttacagGATGATGAAGCTGTCAATATTTGGAACTTGAGAAAATGCAGTGCAGCAGGTCTTGATATCCTTTCAGATGTGTTTGGGGATGAGATTCTTCCAACATTGA
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--tttagtgaaagacttaaagtttcagttactgtgaaa-tcagtgctcaggagagtttgctatgctggttctcacatctctactttgtgattcttttctacagGACGATGATGATATAATAAATTCCTGGAACTTGCGAAAATGTAGTGCAGCTGGACTTGATATTTTATCAACTGTATTTGGAGATGAGATTCTTCCAGTTC--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttatatatttaatttttctggttaactgtattggggacttattccatttacagGATGATGAAGCTGTCAATATTTGGAACTTGAGAAAATGCAGTGCAGCAGGTCTTGATATCCTTTCAGATGTGTTTGGGGATGAGATTCTTCCAACATTGA
ggttaac putative branch site (score: 3)
cttattcc putative PPT
tatatttaatttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacctaatagtagtgttttttttcttctccttttaaaaacctgaggtttatatatttaatttttctggttaactgtattggggacttattccatttacagGATGATGAAGCTGTCAATATTTGGAACTTGAGAAAATGCAGTGCAGCAGGTCTTGATATCCTTTCAGATGTGTTTGGGGATGAGATTCTTCCAACATTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
aacctaa
- - - - - - - - - - - -cttctcc
- - - - - - - - - - - - - - - - -taaaaac