Sequence
atgc intronic sequence ATGC exonic sequencegtacgtgatttatgctaaattatgtaaagcctcactttcacatggttgttgtcgtaaatgttgccaacatgggtttgctgtattgaagGGAAAATGAACAACTCTCTAAGTATGGGGATACAAAGTCTGCTAGAGCAATTATGTTGGTTGAGCTCAAAAAGCTTATCGAAGCAAATCCCTTATTCCGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 4
gtacgtgattta-tgctaaattatgtaaagcctcactttcacatggttgtt-gtcgtaaatgttgccaacatgggtttgctgtattgaagGGAAAATGAACAACTCTCTAAGTATGGGGATACAAAGTCTGCTAGAGCAATTATGTTGGTTGAGCTCAAAAAGCTTATCGAAGCAAATCCCTTATTCCGT
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gtaccagtcctaatatttactcccgt----tttcagtttagaagttatgtaagatgcagctattagcta-atgagttaatgttgaaatagGGAAAATGAACAATTGTCAAAGTATGGTGATACAAAGTCTGCACGAGCAATCATGTTGGTTGAGCTCAAAAAGCTCATTGAAGCAAATCCCTTATTTCGT
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G22910.1 (Glycine max), 3'ss of exon 3
gtacgtgatttatgctaaattatgtaaagcctcactttcacatggttgtt-gtcgtaaatgttgccaacatgggtttgctgtattgaagGGAAAATGAACAACTCTCTAAGTATGGGGATACAAAGTCTGCTAGAGCAATTATGTTGGTTGAGCTCAAAAAGCTTATCGAAGCAAATCCCTTATTCCGT
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gtaccagtcttaattt---ttactcctgttctcagtttagaagttatgtaagatgcagctattagcta-atgagttaatcttgacgtagGGAAAATGAGCAATTGTCTAAGTATGGTGATACAAAATCTGCACGAGCAATCATGTTGGTTGAGCTCAAAAAGCTAATTGAAGCGAATCCCTTATTTCGT
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G44420.1 (Glycine max), 3'ss of exon 4
gtacgtgatttatgctaaattatgtaaagcctcacttt-cacatggttgttgtcgtaaatgttgccaacatgggtttgctgtattgaagGGAAAATGAACAACTCTCTAAGTATGGGGATACAAAGTCTGCTAGAGCAATTATGTTGGTTGAGCTCAAAAAGCTTATCGAAGCAAATCCCTTATTCCGT
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---------------gtatgtatataattcttagcttggtgtaaaacttctgtaagaaaca-----gaaaatgatttctggcattatagGGAAAATGAGCAATTGTCTAAGTATGGTGATACAAAGTCTGCAAGGGCAATCATGTTGGTTGAGCTCAAAAAGTTGATTGAGGCCAATCCCTTATTTCGT
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G00880.1 (Glycine max), 3'ss of exon 3
gtacgtgatttatgctaaattatgtaaagcctcacttt-cacatggttgttgtcgtaaatgttgccaacatgggtttgctgtattgaagGGAAAATGAACAACTCTCTAAGTATGGGGATACAAAGTCTGCTAGAGCAATTATGTTGGTTGAGCTCAAAAAGCTTATCGAAGCAAATCCCTTATTCCGT
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---------------gtacgtatataattcttagcttggtgtaaaacttctgtaagaaacat----aaaatga-tttctggcattatagGGAAAACGAGCAATTGTCTAAGTATTGTGATACAAAGTCTGCAAGGGCAATCATGTTGGTTGAGCTCAAAAAGTTGATTGAGGCCAATCCCTTATTTCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttcacatggttgttgtcgtaaatgttgccaacatgggtttgctgtattgaagGGAAAATGAACAACTCTCTAAGTATGGGGATACAAAGTCTGCTAGAGCAATTATGTTGGTTGAGCTCAAAAAGCTTATCGAAGCAAATCCCTTATTCCGT
gcctcac putative branch site (score: 3)
taaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtgatttatgctaaattatgtaaagcctcactttcacatggttgttgtcgtaaatgttgccaacatgggtttgctgtattgaagGGAAAATGAACAACTCTCTAAGTATGGGGATACAAAGTCTGCTAGAGCAATTATGTTGGTTGAGCTCAAAAAGCTTATCGAAGCAAATCCCTTATTCCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA