Sequence
atgc intronic sequence ATGC exonic sequencegtttgaactaggctgtttattcctgtttttagatccatttaaatgaagcatttatatgctcctcttttgttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
gtttgaactag-gctgt-ttattcctgtttttagatccatttaaatgaagcatttatatgctcctcttttgttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC
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gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaa-atggatttattactgtggtgcttt---------tgaattaaattttgt--agTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
gtttgaactaggctg-tttattcctgtttttagatccatttaaatgaagcatttatatg--ctcctcttttgttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC
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-------gtatgttgatttaatataaaccttatatcctgttgt-tgctggatgaaaatgaatttctcatcagctttgtaattc-------------ttttgtagTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
gtttgaact---aggctgtttattcctgtttttag-atccatttaaatgaagcatttatatgctcctcttttgttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC
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tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatg----aatttctcatgagctt-tataattcttttgtagTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttgaacta-ggctgtttattcctgtttttagatccatttaaatgaagcatttatatgctcctctt---ttg-ttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC
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--gtgagtcgcagctgcagtcgtttttttttggatatattgatagttactagtttgatgtatttgttaacttgcttttgctgtttacttctgc-aatgtgttttagTTTGAGGCAGCTTGGGCGCTCACCAACATTGCTTCAGGGACATCAGAGAACACAAATGTCATCATTGAAAGTGGAGCTGTCCCGATATTCATCCAACTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcatttatatgctcctcttttgttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC
tactgat putative branch site (score: 2)
ttttattt putative PPT
ttttgttttgttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaactaggctgtttattcctgtttttagatccatttaaatgaagcatttatatgctcctcttttgttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC