Sequence
atgc intronic sequence ATGC exonic sequencegtgaccatttgtcttctgtttaccttaaactattacttgttttgatcaaacaaaatccacttaaccatctaacggttttattgtaccagGTGTTGGGTAATAAATACCAGAGCAAGTTGCTTGAAGTAATCGATGCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 6
gtgaccattt---gtcttctgtttaccttaaactattacttgttttgatcaaacaaaatccacttaaccatctaacggttttattgtaccagGTGTTGGGTAATAAATACCAGAGCAAGTTGCTTGAAGTAATCGATGCTAG
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gtaaacatttttagtctgctgatcaatttgaaccaatgttgattttcatttaagcagggacactgaacatgttaatgattt-attg-accagGTCCTAGGTAACAAATACCAGAGCAAGTTGCTTGAAATCATTGATGCCAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G12270.1 (Glycine max), 3'ss of exon 5
gtgaccatt---tgtcttctgtttaccttaaactattacttgttttgatcaaacaaaatccacttaaccatctaacggttttattgtaccagGTGTTGGGTAATAAATACCAGAGCAAGTTGCTTGAAGTAATCGATGCTAG
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gtaagcattttttatatacttttcaccatgaagcaatgtacgtttcagttaagtaggagc-acttaatagatta-ctgctttattg-accagGTCCTAGGTAACAAATACCAGAGCAAGTTGCTTGAAATCATTGATGCCAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G01230.1 (Glycine max), 3'ss of exon 5
gtgaccattt---gtcttctgtttaccttaaactattacttgttttgatcaaacaaaatccacttaaccatctaacggttttattgtaccagGTGTTGGGTAATAAATACCAGAGCAAGTTGCTTGAAGTAATCGATGCTAG
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gtaaacctttttagtgtgctgatcaatttgaaccaaggttgattttcatttaagcatggacactgaacatgttaatgattt-attg-accagGTCCTAGGTAATAAATACCAGAGGAAGTTGCTTGAAATCATTGATGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgttttgatcaaacaaaatccacttaaccatctaacggttttattgtaccagGTGTTGGGTAATAAATACCAGAGCAAGTTGCTTGAAGTAATCGATGCTAG
atctaac putative branch site (score: 2)
ttttatt putative PPT
ttttattgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaccatttgtcttctgtttaccttaaactattacttgttttgatcaaacaaaatccacttaaccatctaacggttttattgtaccagGTGTTGGGTAATAAATACCAGAGCAAGTTGCTTGAAGTAATCGATGCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG