Sequence
atgc intronic sequence ATGC exonic sequencegtaatgctcaggcctatacctcatgttttgtagtgtactagctggatagaactaactgaaactttcagaggcagtcgctgaatgttttgattgggtcaatacattgatctagttagtaaccttattttgcatgattttcaagGAGGAGAAGAGGACTCTGGAAAGGGAGTTGGCAAGAGTTAAAGTTTCAGCCAACCGAGTTGCAACTGTGGTTGCTAATGAGTGGAAGGATGAGAATGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G01560.1 (Glycine max), 3'ss of exon 8
gtaatgctcaggcctatacctcatgttttgtagtgtactagctggatagaactaactgaaactttcagaggcagtcgctgaatgttttgattgggtcaatacattgatctagttagtaaccttattttgcatgattttcaagGAGGAGAAGAGGACTCTGGAAAGGGAGTTGGCAAGAGTTAAAGTTTCAGCCAACCGAGTTGCAACTGTGGTTGCTAATGAGTGGAAGGATGAGAATGACA
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---------------gtagg-catatcttatggc-cactgccattatgaacttaa-------ttttggatatattggctttctgcatt--tcgg---------ttggtctaagcagtgacatgatttaacacaaattttcagGAGGAGAAAAGGACACTGGAGAGGGAGCTAGCAAGGGTAAAAGTTTCAGCCAACAGAGTTGCAACTGTTGTGGCTAATGAGTGGAAGGATGAGAATGACA
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G12490.1 (Glycine max), 3'ss of exon 6
gtaatgctcaggcctatacctcatgttttgtagtgtactagctggatagaactaactgaaactttcagaggcagtcgctgaatgttttgattgggtcaatac--attgatctagttagtaaccttattttgcatgattttcaagGAGGAGAAGAGGACTCTGGAAAGGGAGTTGGCAAGAGTTAAAGTTTCAGCCAACCGAGTTGCAACTGTGGTTGCTAATGAGTGGAAGGATGAGAATGACA
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--------------------------------gtaggcatatcttattggat--actgacattttgagct-taatttctga-tatattgattttctgcattctggtcgatcaatgtagtgacataatttaacccaaattttcagGAGGAGAAAAGGACACTGGAGAGGGAGCTAGCAAGGGTAAAAGTTTCAGCCAACAGAGTTGCAACTGTTGTGGCGAATGAGTGGAAGGATGAGAATGACA
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G01060.1 (Glycine max), 3'ss of exon 3
gtaatgctcaggcctatacctcatgttttgtagtgtactagctggatagaactaactgaaactttcagaggcagtcgctgaatgttttgattgggtcaatacattgatctagttagtaaccttattttgcatgattttcaagGAGGAGAAGAGGACTCTGGAAAGGGAGTTGGCAAGAGTTAAAGTTTCAGCCAACCGAGTTGCAACTGTGGTTGCTAATGAGTGGAAGGATGAGAATGACA
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--------------------------------gtacgcatatcttaaggagttattagaa---ttctgaagttatcgtcagctataatgatt---------ttttgatta---ttgttatctgattttgcatgtttttttagGAAGAGAAGAGGACATTAGAGAGGGAGCTAGCAAGGGTAAAAGTTTCAGCCAACAGAATTGCAAATGTTGTGGCTAATGAGTGGAAGGACGAAAATGATA
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G39740.1 (Glycine max), 3'ss of exon 4
gtaatgctcaggcctatacctcatgttttgtagtgtactagctggatagaactaactgaaactttcagaggcagtcgctgaatgttttgattgggtcaatacattgatctagttagtaaccttattttgcatgattttcaagGAGGAGAAGAGGACTCTGGAAAGGGAGTTGGCAAGAGTTAAAGTTTCAGCCAACCGAGTTGCAACTGTGGTTGCTAATGAGTGGAAGGATGAGAATGACA
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---------------------------------------------gtaggcatatcttaatgagttattggcattc--tgaagttattgttatccataatgacttgttgattattgttatctgattttgcataatttttcagGAAGAGAAGAGGACATTAGAGAGGGAGCTAGCAAGGGTAAAAGTTTCAACCAACAGAATTGCAAATGCCGTGGCTAATGAGTGGAAGGACGAAAATCATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattgggtcaatacattgatctagttagtaaccttattttgcatgattttcaagGAGGAGAAGAGGACTCTGGAAAGGGAGTTGGCAAGAGTTAAAGTTTCAGCCAACCGAGTTGCAACTGTGGTTGCTAATGAGTGGAAGGATGAGAATGACA
tagtaac putative branch site (score: 1)
ttttc putative PPT
ttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgctcaggcctatacctcatgttttgtagtgtactagctggatagaactaactgaaactttcagaggcagtcgctgaatgttttgattgggtcaatacattgatctagttagtaaccttattttgcatgattttcaagGAGGAGAAGAGGACTCTGGAAAGGGAGTTGGCAAGAGTTAAAGTTTCAGCCAACCGAGTTGCAACTGTGGTTGCTAATGAGTGGAAGGATGAGAATGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG