Sequence
atgc intronic sequence ATGC exonic sequence...gcaatactaattgtataatagatttaacttcctacttaatttccccttttattgttggaagtttctttcatttagtgaaggctagtctctcttgatatagGTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 3
gcaatactaattgtataatagatttaacttcctacttaatttccccttttattgttggaagtttctttcatttagtg--aaggctagtctctcttgatata-gGTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCT
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---tcatcaggcttgttgaagattaccgcagtaatgtaaaacatatttataataaatcaattttgatgcattgtgtttttacactattgtttcattttctaagGTTGCTGCATGGAAAGACAAGGATGGAGACTGGTATGAGACAGGTCTACACATCTTCT
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 3
gcaatactaattgtataatagatttaacttcctacttaatttccccttttattgttggaagtttctttcatttagtg--aaggctagtctctcttgatata-gGTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCT
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--atcatcaggtttgttgaaggtt-accacagtatatacaacatatttataataaatcaattttaatgtattgtgtttttatactattgtttcattttctaagGTTGCTGCATGGAAAGACAAGGATGGAGACTGGTACGAGACAGGCCTACACATCTTTT
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 4
----gcaatactaattgtataatagatttaacttcctacttaatttccccttttattgttggaagtttctttcatttagtgaaggctagtctctcttgatatagGTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCT
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ttctctggttcttaggttaggttcttgtttgttccgttttaacaatttacctatcttattggagagcgat---attta-tgatgtgatatttgtcttcctccagATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACATATTTTCT
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EDP05305 (Chlamydomonas reinhardtii), 3'ss of exon 1
gcaatactaattgtataatagatttaacttcctacttaatttccccttttattgttggaagtttctttcatttagtgaaggctagtctctcttgatatagGTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCT------------------------------------------
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------gtgagtgtgcacccggcgag---cgccaattcgtgcatcgtagcataaatggacaattg----ggctaaccgtgccaaccttttgctggt--agGTCGCTGCATGGAAGGATGAGGATGGCGACTGGTACGAGACTGGCTTGCACATCTTCTTCGGCGCGTACCCCAACATGATGAATGTCTTCAAGGAGCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttattgttggaagtttctttcatttagtgaaggctagtctctcttgatatagGTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCT
tcttgat putative branch site (score: 4)
tctctctt CT-rich tract
tttcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaatactaattgtataatagatttaacttcctacttaatttccccttttattgttggaagtttctttcatttagtgaaggctagtctctcttgatatagGTGGCTGCATGGAAAGATGAGGATGGAGACTGGTATGAGACAGGCCTACATATATTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - cctactt