Sequence
atgc intronic sequence ATGC exonic sequencegtgttgaatttattccttgtgtggttttcttggcatgctttatcatgtaaaagtagggattatatatttgattgctacatctttgcagCTCCTTGACATTGCAAATGTTCATTGCTTGTGGTGGAATACCTGTTTTAGTGGGCTTTCTGGAGGCTGATTATGTGAGGTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g02270.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os04g56530.1 (Oryza sativa), 3'ss of exon 17
gtgttgaatttattccttg--tgtggttttcttggcatgctttatcatgtaaaagtagggattatatatt------tgattgctacatctttg----cagCTCCTTGACATTGCAAATGTTCATTGCTTGTGGTGGAATACCTGTTTTAGTGGGCTTTCTGGAGGCTGATTATGTGAGGTACAG
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--gtttgttctttgacttaattgttagtgtctaactatatttagatacaaataaa-aggaattaaacgttgtgggctaattttcaaatttgcatcctcagCACCTTGACATTGCAAATGTTCATTGCATGCCAAGGGATCCCTGTATTGGTGAGTTTTCTGGAGCCTGATTATGCAAAATACAG
upper sequence: Vv01s0011g02270.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA12G03090.1 (Glycine max), 3'ss of exon 18
gtgttgaatttattccttgtgtggttttcttggcatg--ctttatcatgtaaaagtagggattatatatttgattgctacatctt--tgcagCTCCTTGACATTGCAAATGTTCATTGCTTGTGGTGGAATACCTGTTTTAGTGGGCTTTCTGGAGGCTGATTATGTGAGGTACAG
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gtctggaatgtattttatttgttgttacttttacctggattccatattttgaaaataaag--catagaattgattgttattacttgatgcagTTCTTTAACATTACAAATGTTTATAGCTTGCCGCGGAATACCTGTTTTAGTGGGATTTCTTGAGGCTGATTATGCCAAGTACAG
upper sequence: Vv01s0011g02270.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 18
gtgttgaatttattccttgtgtg---gttttcttggcatg--ctttatcatgtaaaagtagggattatatatttgattgctacatctt--tgcagCTCCTTGACATTGCAAATGTTCATTGCTTGTGGTGGAATACCTGTTTTAGTGGGCTTTCTGGAGGCTGATTATGTGAGGTACAG
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gtctggaatgtatcttatttgttattgttatttttacctggattctgtattttgaaaataaag--catagaattgattgttattacttgatgcagTTCTTTGACATTACAAATGTTTATAGCTTGCCGCGGAATACCTGTTTTAGTGGGATTTCTTGAAGCTGATTATGCCAAGTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgctttatcatgtaaaagtagggattatatatttgattgctacatctttgcagCTCCTTGACATTGCAAATGTTCATTGCTTGTGGTGGAATACCTGTTTTAGTGGGCTTTCTGGAGGCTGATTATGTGAGGTACAG
atttgat putative branch site (score: 5)
catcttt putative PPT
attatatatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgttgaatttattccttgtgtggttttcttggcatgctttatcatgtaaaagtagggattatatatttgattgctacatctttgcagCTCCTTGACATTGCAAATGTTCATTGCTTGTGGTGGAATACCTGTTTTAGTGGGCTTTCTGGAGGCTGATTATGTGAGGTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT