Sequence
atgc intronic sequence ATGC exonic sequence...tctgtgccttgatgtgactttatgaatgcagtgtgttaatctaatttacagtccgtaattcagaggaatagcgttattactgatctggctttgtttgcagTTGATTGCTACTGCTTCCCTTTTTCTTGCTGCAAAGTCCGAGGAAACACAGCGCCCTTTGAACAATGTAGTGAGAGCATCTTGTGAAATTCTCCATAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G00680.1 (Glycine max), 3'ss of exon 3
tctgtgccttgatgtgactttatgaatgcagtgtgttaatct--aatttacagtccgtaattcaga-ggaatagcgttattactgatctggctttgtttgcagTTGATTGCTACTGCTTCCCTTTTTCTTGCTGCAAAGTCCGAGGAAACACAGCGCCCTTTGAACAATGTAGTGAGAGCATCTTGTGAAATTCTCCATAAGC
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--tatgcagtggtggcatgtggtatttcttatttgtttttcttaagatgcttctctatagtcaacctgcgatttaattaattttgatcatgctctgcc-acagTTGATTGCTACTGCTGCCCTTTTTCTTGTTGGAAAGTCAGAGGAAACACCGTGTCCTTTGAATAATGTGTTGCAAGCATCCAGTGAAATCTTACATGAAC
upper sequence: Vv05s0020g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G28190.1 (Glycine max), 3'ss of exon 4
tctgtgccttgatgtgactttatgaatgcagtgtgttaatctaatttacagtccgtaattcagaggaatagc--gttat-tactgatctggctttgt-ttgcagTTGATTGCTACTGCTTCCCTTTTTCTTGCTGCAAAGTCCGAGGAAACACAGCGCCCTTTGAACAATGTAGTGAGAGCATCTTGTGAAATTCTCCATAAGC
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---ttcatttaaattaattgtgt-aatgttatttgtaatttgttccttcgagttgcatttctatggccaagctgattatcttttcattttgatctgtgttgcagTTGATTGCTACTGCTGCTCTTTTTCTTACTGCAAAGTCAGAGGAAGCTCCACGTCCTTTGAATAACATATTGAGAACATCCAGTGAAATTTTACATAAAC
upper sequence: Vv05s0020g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G39550.1 (Glycine max), 3'ss of exon 3
tctgtgccttgatgtgactttatgaatgcagtgtgttaatctaatttacagtccgtaattcagaggaatagcgttattac----tgatctggctttgt-ttgcagTTGATTGCTACTGCTTCCCTTTTTCTTGCTGCAAAGTCCGAGGAAACACAGCGCCCTTTGAACAATGTAGTGAGAGCATCTTGTGAAATTCTCCATAAGC
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----tcatttaaattaattgtgt-aatgttatttgtaatttgttccttcgagttgcatctctatggccaagcttgattatctattcattttgatctgtgctgcagTTGATTGCTACTGCTGCTCTTTTTCTTACTGCAAAGTCAGAGGAAGCTCCACGTCATTTGAATAACGTATTGAGAACATCCAGTGAAATTTTATATAAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacagtccgtaattcagaggaatagcgttattactgatctggctttgtttgcagTTGATTGCTACTGCTTCCCTTTTTCTTGCTGCAAAGTCCGAGGAAACACAGCGCCCTTTGAACAATGTAGTGAGAGCATCTTGTGAAATTCTCCATAAGC
tactgat putative branch site (score: 2)
ctttgttt putative PPT
ttattact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgtgccttgatgtgactttatgaatgcagtgtgttaatctaatttacagtccgtaattcagaggaatagcgttattactgatctggctttgtttgcagTTGATTGCTACTGCTTCCCTTTTTCTTGCTGCAAAGTCCGAGGAAACACAGCGCCCTTTGAACAATGTAGTGAGAGCATCTTGTGAAATTCTCCATAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - tgccttg
- - - - - - - - - - - -gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggaata