Sequence
atgc intronic sequence ATGC exonic sequence...gaccaaacttgatctgtggaacttttgagccacttgtctcacatgtgtgcttatttattgagttaaacaactaacttcatttttctgttgtgactttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g01830.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g05820.1 (Oryza sativa), 3'ss of exon 8
gaccaaacttgatctgtggaacttttgagccacttgtctcacatgtgtgcttatt-tattgagttaaacaactaacttc---atttttctgttgtgactttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA
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--cctttgctaaaaagaaaaacatc--atgcatcagtttcagctatatataaatgatatatctgtaaaccatgatggtaagaatttaaattgtgttatcaacagGTTGAGTTGTTGAACAACATTCGCCACCCGAATATGGTGCATCTGTTGGGTGCTTGCCCTGAGTATGGCTGTCTGGTGTATGAATACATGCCGAATGGCA
upper sequence: Vv09s0002g01830.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G03100.1 (Glycine max), 3'ss of exon 4
gaccaaacttgatctgtggaacttttgagccacttgtctcacatgtgtgcttattt--attgagttaaacaactaact--tcatttttctgtt--gtgactttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA
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-----------------gtaaccat---actagtcactttataaatttttttatttggaataggttagcattttcatttattatttttcaaattggtacatgacagGTTAATGTTTTGAGCACTATAAAACATCCAAACATGGTTCAACTTCTAGGTGCCTGTCCAGAGTACGGATGCCTTGTATATGAGTACATTGAAAATGGTA
upper sequence: Vv09s0002g01830.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G03970.1 (Glycine max), 3'ss of exon 7
---gaccaaacttgatctgtggaacttttgagccacttgtctcacatgtgtgcttatttattgagttaaacaactaacttcatttttctgttgtga-ctttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA
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aaatatcaattttgac---taaaacttaaaagggttttaaaacacattttaccatagaaaacaagagtcttagttgtctt-attcataaatggttctcgtgcagGTTATTGTTTTGAGCACCATAAGACATCCAAGCATGGTGCTCCTCCTAGGAGCATGCCCAGAATATGGATGCCTTGTGTACGAGTACATGGAAAATGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgcttatttattgagttaaacaactaacttcatttttctgttgtgactttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA
aactaac putative branch site (score: 1)
ctttc putative PPT
ttatttattgagttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaccaaacttgatctgtggaacttttgagccacttgtctcacatgtgtgcttatttattgagttaaacaactaacttcatttttctgttgtgactttcagGTTGAGGTACTGAGCTGCATGAGACATCCAAATATGGTTCTCCTTGTAGGTGCCTGCCCTGAGTATGGATGCCTTGTGTATGAATACATGGAAAATGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- ccaaact
- - - - - - - - - - - - - - gccactt
- - - - - - - - - - - - - - - - - - - tcacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaacaa