Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgaatttgacatattcattctgttaatgtctctgttacagtaaactttaatatttatttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g02780.1 (Oryza sativa), 3'ss of exon 2
gtatgtgaatttgacatattcattctgttaatgtctctgttacagtaaactttaatatttatttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
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gtatgtgagt-----gtttttctttttttggtgttatcaaatttacggatgctacttcatgttgagctttgaatgcaatttactgacattaacatg-cagGCAAACTGGAGCTCTTTGTGCAATGAAAGAAGTCAACATAATTCCTGATGATGCGAAATCTGCCGAGTCTTTGAAGCAGTTAGAGCAG
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G20460.1 (Glycine max), 3'ss of exon 3
gtatgtgaatttgacatattcattctgttaatgtctc-----tgttacagtaaactttaatatttatttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
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----------------------gttcgtaaatgtttcatgagtattttaagatcttctgttgtcttttttctaaggctctgaaacagatgttgcttct-tgacagGGAAACCGGAGCATTATGTGCAATGAAGGAAGTAGAATTATTTCCTGATGATCCAAAATCTGCTGAGTGTATAAAGCAGTTAGAGCAG
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 1
gtatgtgaatttgacatattcattctgttaatgtctctgttacagtaaactttaatatttatttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
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gtatgtaaatgtttcgtgagtatt---ttaagatct--------------tctgttgtctcttttctaaggctctgaaacagatgctgcttct-tgacagGGAAACCGGAGCATTATGTGCAATGAAGGAAGTAGAGTTATTTCCTGATGATCCAAAATCTGCAGAGTGTATAAAGCAGTTAGAGCAG
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G06200.1 (Glycine max), 3'ss of exon 5
gtatgtgaatttgac--atattcattctgttaatgtctctgttacagtaaactttaatattt---atttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
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gtatgctatgttatctagtacaagtttcataagcattaatgctatttccattctctctttcttggaattgaagctcatttaggactccttttttttc-ctcacagAAAAACTGGAGCATTGTGTGCAATGAAGGAAGCGGAAATATTTTCTGATGATCCAAAGTCTGCAGAGTGCATAAAGCAGTTAGAGCAG
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 4
----gtatgtgaatttgacatattcattctgttaatgtctctgttacagtaaac--tttaatatttatttagtatttgtttttg-ttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
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gtatatctgtggttctagtgctacatttttcataagcattattttaagctcttccattctctctttcttcgaagctcgtctaaaacatattgttgttcctc--atagAAAAACTGGAGCATTGTGTGCAATGAAGGAAGCAGAAATATTTTCTGATGATCCAAAGTCTGCAGAGTGCATAAAGCAGTTAGAGCAG
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 2
------gtatgtgaatttgacatattcattctgttaatgtctctgttacagtaaactttaatatttatttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
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gtagtcttttctctctatggtatgatctttcctacagtttttgagtgccaatatgcttc--ttcttttttagtgcaatcctgagtt----gtttttcatttg-cagCGAAACTGGAGCATTGTGTGCGATGAAAGAAGTTGAGCTATTTCCTGATGACCCCAAATCCGCAGAGTGTATAAAGCAATTAGAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaactttaatatttatttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
ctttaat putative branch site (score: 4)
tatttgtttttgtttt putative PPT
tttaatatttatttag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgaatttgacatattcattctgttaatgtctctgttacagtaaactttaatatttatttagtatttgtttttgttttttgtttttcctctaacagAGAAACTGGAGCTCTATGTGCAATGAAAGAAGTTGAATTGCTTCCTGATGACCCAAAATCTGCAGAGAGTATAAAGCAGTTAGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG