Sequence
atgc intronic sequence ATGC exonic sequencegtagtgtggtttgggctctcactgcactcagctatgcaattatatcactggctcttggtttttctacacctattattataattatgtcatctccttgtttagttacttattctcatgatgtttcttgatttgtgtgtagGTGAATCTACCTGTTAATGTGTTGCCAGTGACATTCCCAGGGCATGGTCATAGTCAAGCTTTTAATGCGCCTGATGATTTGCCCAAGACTCTAGTACGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G22910.1 (Glycine max), 3'ss of exon 7
gtagtgtggtttgggctctcactgcac--tcagctatgcaattatatcactggctcttggtttttctacacctattat--tataattatgtcatctccttgtttagttacttattctcatgatgtttcttgatttgtgtgtagGTGAATCTACCTGTTAATGTGTTGCCAGTGACATTCCCAGGGCATGGTCA---TAGTCAAGCTTTTAATGCGCCTGATGATTTGCCCAAGACTCTAGTACGGA
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gtaatccgtctttgcttatggacatacctttagcagttca-ttgtaggctttggtggcaaaaccaatgaattgcttatggtataacactatagtgtaactgagttttaacccatgttttcttctattcatcactt-tatgcagGTAAATCTTCCTGTCAATGTGTTGTCAGCTACATTCCCAGGTCATGGTCAACATAGTCAAGCTTTTAATGCACCTGATGACATACCTAAGACTGTTGTGC---
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 8
gtagtgtggtttgggctctcactgcac--tcagctatgcaattatatcactggctcttggtttttctacacctattattataattatgtcatctccttgtttagttacttattctcatgatgtttcttgatt-----tgtgtgtagGTGAATCTACCTGTTAATGTGTTGCCAGTGACATTCCCAGGGCATGGTCA---TAGTCAAGCTTTTAATGCGCCTGATGATTTGCCCAAGACTCTAGTACGGA
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gtaatctgtctttgcttatggacataccattagcagttcattggtaggcctcggtggcaaaaccaatgaattgcttatggta-taacactatagtgtaactgtgagttttaacctcgtgctttctgctattcatcactttatgcagGTGAATCTTCCTGTCAATGTGTTGTCAGCAACATTCCCTGGTCATGGTCAACATAGTCAAGCTTTTAATGCACCTGATGACATACCTAAGACTGTCGTAC---
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G44420.1 (Glycine max), 3'ss of exon 8
gtagtgtggtttgggctctcactgcactcagctatgcaattatatcactggctcttggtttttctacacctattattataattatgtcatctccttgtttagttacttattctcatgatgtttcttgatttgtgtgtagGTGAATCTACCTGTTAATGTGTTGCCAGTGACATTCCCAGGGCATGGTCATAGTCAAGCTTTTAATGCGCCTGATGATTTGCCCAAGACTCTAGTACGGA
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-------------------gtctggtgtcatttatggaaacatcatacttggtcttgga------actcataccaatacaagt-tattatctcacatttctgctatcaatctttat--------------tttgtgcagGTAAATCTGCCTGTCAATGTTTTGTCAGCAACGTTCCCTGGTCATGGTCATGGTCAGGCTTTTAATGCACCTGATGACTTGCCAAAGACTGCCATGCGAA
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G00880.1 (Glycine max), 3'ss of exon 7
gtagtgtggtttgggctctcactgcactcagctatgcaattatatcactggctcttggtttttctacacctattattataattatgtcatctccttgtttagttacttattctcatgatgtttcttgatttgtgtgtagGTGAATCTACCTGTTAATGTGTTGCCAGTGACATTCCCAGGGCATGGTCATAGTCAAGCTTTTAATGCGCCTGATGATTTGCCCAAGACTCTAGTACGGA
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----------------gtaatctggtgtcatttatggaaacatcatacatggtcttggaactc--acagcaatgcaagttattatctcacatttctggt--atca------------atctttctttattt-tgtgcagGTAAATCTGCCTGTCAATGTTTTGTCAGCAACGTTCCCTGGTCATGGTCATGGTCATGGTCATGGTCAGGCTTTTAATGCCCCTGATGATTTGCCAAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcatctccttgtttagttacttattctcatgatgtttcttgatttgtgtgtagGTGAATCTACCTGTTAATGTGTTGCCAGTGACATTCCCAGGGCATGGTCATAGTCAAGCTTTTAATGCGCCTGATGATTTGCCCAAGACTCTAGTACGGA
tcttgat putative branch site (score: 4)
tttagttacttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgtggtttgggctctcactgcactcagctatgcaattatatcactggctcttggtttttctacacctattattataattatgtcatctccttgtttagttacttattctcatgatgtttcttgatttgtgtgtagGTGAATCTACCTGTTAATGTGTTGCCAGTGACATTCCCAGGGCATGGTCATAGTCAAGCTTTTAATGCGCCTGATGATTTGCCCAAGACTCTAGTACGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT