Sequence
atgc intronic sequence ATGC exonic sequencegtgattgtcttgtgcatttgtgtgaatgttctggattctttttttctatttctgtaaattgtatctttcctgacgatgaccagGAGCTCAACAAGTCACTCATAGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGTCCAGAAATTGTGTCACTGCATATGGAGCATTTTATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: LOC_Os04g59494.1 (Oryza sativa), 3'ss of exon 24
gtgattgtcttgtgcatttgtgtga--atgttctggattctttttttctatttctgtaaattgtatctt---tcctgacg-atgac--cagGAGCTCAACAAGTCACTCATAGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGTCCAGAAATTGTGTCACTGCATATGGAGCATTTTATGC
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gtaattgcattttaagttgttctcatcacgtcttttactcgagtgagc-atttcagctaaatgcctcgtgtgtcctgacatactattacagGGCTTGAATAAGTCACTTCTCGAAAATAGCGCAATCACTCTTGGGAGGCTTTGCTGGGTCTGTCCAGACATTGTGGCCCCCCACATGGACCATTTCATGC
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 24
gtgattgtcttgtgcatttgtgtgaatgttctggattctttttttctatttc-tgtaaattgtatctttcctgacgatgaccagGAGCTCAACAAGTCACTCATAGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGTCCAGAAATTGTGTCACTGCATATGGAGCATTTTATGC
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gtgggtgattttaaggtttcttatgtcacgtttcatttaaaatttcaactaaatggctagttttccccccttcacattgac-agGGTTTGAACAAGTCACTTGTTGAAAATAGTGCGATCACTCTTGGGAGGCTTAGCTGGGTCTGTCCAGACATCGTGGCCCCTCATATGGAGCATTTCATGC
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 24
gtgattgtcttgtgcatttgtgtgaatgttctggattctttttttctatttctgtaaattgtatctttcctgacgatgaccagGAGCTCAACAAGTCACTCATAGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGTCCAGAAATTGTGTCACTGCATATGGAGCATTTTATGC
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gtcattatcacgt-cacattcttgaattat---aattttggtcatgttcagttgctgattgt---cttgctgtttat----agGGACTCAACAAGTCACTTATAGAAAATAGTGCAATAACATTGGGGAGGCTTGCATGGGTCTGTCCGGAGCTTGTATCACCACATATGGAGCATTTCATGC
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 24
gtgattgtcttgtgcatttgtgtgaatgttctggattctttttttctatttctgtaaattgtatctttcctgacgatgaccagGAGCTCAACAAGTCACTCATAGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGTCCAGAAATTGTGTCACTGCATATGGAGCATTTTATGC
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gtcattatcacatcacattcttcaattat----aattttgttcatgttcagttgctgattgt---cttgctgtttat----agGGACTCAACAAGTCGCTTATAGAAAATAGTGCAATAACACTGGGGAGGCTTGCATGGGTCTGTCCGGAGCTTGTATCACCACATATGGAGCATTTCATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctggattctttttttctatttctgtaaattgtatctttcctgacgatgaccagGAGCTCAACAAGTCACTCATAGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGTCCAGAAATTGTGTCACTGCATATGGAGCATTTTATGC
tcctgac putative branch site (score: 2)
tttttttctatttctg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattgtcttgtgcatttgtgtgaatgttctggattctttttttctatttctgtaaattgtatctttcctgacgatgaccagGAGCTCAACAAGTCACTCATAGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGTCCAGAAATTGTGTCACTGCATATGGAGCATTTTATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA