Sequence
atgc intronic sequence ATGC exonic sequence...gattcttgattgtgttttttatatatgaattaactgacctagttaattgttattctgccttcaccaattctgttaaccattatctgtctgctatgtgaagTTACTATATCCTTCAGATCATTCAAGAGGATAGGGGGTCAAATTGTTATGTCTTCCGTAAATGGGGCCGAGTTGGGAATGATAAAATTGGAGGAAACAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os07g23110.1 (Oryza sativa), 3'ss of exon 10
-gattcttgattgtgttttttatatatgaattaac--tgacctagttaattgttattctgccttcaccaattctgttaaccattatctgtctgctatgtgaagTTACTATATCCTTCAGATCATTCAAGAGGATAGGGGGTCAAATTGTTATGTCTTCCGTAAATGGGGCCGAGTTGGGAATGATAAAATTGGAGGAAACAAA
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agttgctaaatttctgttaggttattgcaaataatggtgaccctgcttgccctacttaatcttttaacagttctctc--tctctctctttttgtc-tgtgaagCTATTATATACTTCAGGTCATTGAAGAGGATAATGGGTCTGATTGTTATGTATTCCGAAAGTGGGGACGAGTTGGGAATGAAAAAATTGGAGGCACTAAG
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 10
-----------------------------------------------------gattcttgattgtgttttttatatatgaattaactgacctagttaattgttattctgccttcaccaattctg-ttaaccatt-----atctgtctgctatgtgaagTTACTATATCCTTCAGATCATTCAAGAGGATAGGGGGTCAAATTGTTATGTCTTCCGTAAATGGGGCCGAGTTGGGAATGATAAAATTGGAGGAAACAAA
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gtgagttcattgtgttttaacctccttttcttgttatatactcaaaaacttattttttttaattgtgatttgtttttatttacttggtgaattctctcacatcacttcctttcttaagattcttggtttactgtcttaacattttcttcccatgtaaagCTACTACATTCTCCAGATAATCCAAGAAGATAAGGGGTCAGATTGCTATGTGTTTCGTAAATGGGGCCGAGTTGGAAATGACAAGATTGGAGGAACAAAG
upper sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G31820.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------gattcttgattgtgttttttatatatgaattaactgacctagttaattgttattctgccttca----ccaattctgttaacc-attatctgtctgctatgtgaagTTACTATATCCTTCAGATCATTCAAGAGGATAGGGGGTCAAATTGTTATGTCTTCCGTAAATGGGGCCGAGTTGGGAATGATAAAATTGGAGGAAACAAA
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gtgggttcattatgttttaacttccttttcttggtatatacaaaaaagcctttttattttaattgtgatttgtttttatttacttggtgaatctctcacatcacttcctttcttaagattcttgctttgctgtcctaactttttcttcccatgtaaagCTACTACATTCTCCAGATAATCGAGGAAGATAAGGGGTCCGATTGCTATGTGTTTCGTAAATGGGGTCGAGTTGGAAATGACAAGATTGGAGGAACAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgttattctgccttcaccaattctgttaaccattatctgtctgctatgtgaagTTACTATATCCTTCAGATCATTCAAGAGGATAGGGGGTCAAATTGTTATGTCTTCCGTAAATGGGGCCGAGTTGGGAATGATAAAATTGGAGGAAACAAA
tgttaac putative branch site (score: 2)
attatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattcttgattgtgttttttatatatgaattaactgacctagttaattgttattctgccttcaccaattctgttaaccattatctgtctgctatgtgaagTTACTATATCCTTCAGATCATTCAAGAGGATAGGGGGTCAAATTGTTATGTCTTCCGTAAATGGGGCCGAGTTGGGAATGATAAAATTGGAGGAAACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaattc