Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtcatgtcatgtcattttctactcaattgttttttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g39850.1 (Oryza sativa), 3'ss of exon 4
gtaatgtcatgtcat-gtcatttt-ctactcaattgttttttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
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gtacattcttttgatcatccttttgctactctattcaatgaaacctatttgttgttttgttt-gtaatgctgctaatttggaatactt-agGATGAAAATGGTAACTTGTTGGTCACTGAGTACGGGATGTGTGAATACAAGGATCACCAAACACTCTCCATGCAAGAAGTGCCTGAAAATTCTGCCCCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G100639_T01 (Zea mays), 3'ss of exon 4
--gtaatgtcatgtcatgtcattttctactcaattgttttttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
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gtatgctcctactgtttgctctctgcaattttattcaatcaactccatttggtactgtaattgtaatgctgctcaacctgtaatggct-agGATGACAATGGTAACTTGTTGGTTACCGAGTATGGAATGTGTGAATACAAGGATCACCAGACATTGTCCATGCAAGAAGTGCCTGAAAATTCTGCACCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G162445_T01 (Zea mays), 3'ss of exon 4
gtaatgtcatgtcatgtcattttctactcaattgttt--tttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
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gtatgctcccactat-ttgctctctgtactttcattcaatcaacccctttggcactgtggttgtaatgctgttcaatctggaatggct-agGATGACAACGGCAACTTGTTGGTCACCGAGTATGGAATGTGTGAATATAAGGATCACCAGACATTGTCCATGCAAGAAGTGCCTGAAAATTCTGCACCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G08920.1 (Glycine max), 3'ss of exon 4
gtaatgtcatgtcatgtcattttctactcaattgttttttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
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-----gtaatctcaagccccttgatctctaatatcattataatcacccgac-catgaaatttactgactacag-----ctttgttgtagGATGAAAATGGCAACTTACTCGTGACTGAGTTTGGATTGTGCAAATACAAAGATCATCAAACTTTGTCCATTCAAGAAGTTCCTGAGAATTCTGCTCCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G25980.1 (Glycine max), 3'ss of exon 4
gtaatgtcatgtcatgtcattttctactcaattgttttttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
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-----gtaatctaaagctccttgatgtctaat-ataatttataatcacccgacaatgaaa----tttactgattaaagctttgtggtagGATGAAAATGGGAACTTACTCGTGACTGAGTTTGGGCTGTGCAAATACAAAGATCATCAAACTTTGTCCATTCAAGAAGTTCCTGAGAATTCTGCTCCTG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G46280.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatgtcatgtcatgtcattttctactcaattgttt-tttatatatataacataagggatagcctttcaagagaaacacactgttt-------cagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
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-----gtaattacatgttttttgttttcgttttgttcatttacctgtactgctggaagatttgcctcttactgaagattgagtttttttttgttcagGATGATAAGGGAAACTTATTGGTGACTGAGTATGGGCTGTGCAAATACAAAGATCACCAGACCTTGTCAATTCAAGAAGTGCCTGAAAATGCTGCTCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
atataac putative branch site (score: 3)
ctgtttc putative PPT
tatatatataacataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtcatgtcatgtcattttctactcaattgttttttatatatataacataagggatagcctttcaagagaaacacactgtttcagGATGAAAATGGCAACTTATTGGTGACTGAGTATGGGTTGTGCAAATACAAAGACCATCAAACCTTATCAATGCAAGAAGTGCCTGAGAATTCTGCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT