Sequence
atgc intronic sequence ATGC exonic sequence...aacttattagttcatgaagacattgtataaagtattattgctatttgtttatctaattacttcttaaccataactaatatgcttttaagttttatcccagATTTACTTTCTTGCATGCCCCAAAGGAAATGCGCAGTAAAAATGTGGAAGCATTACGAACTCTGCTGGCTCTATGTGACTCAGAGACCAACTCTCTTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 21
---------------------------------------------------------------------------------------aacttattagttcatgaagacattgtataaagtattattgc-tatttgtttatctaattacttc--ttaaccataactaatatgcttttaagttt-tatcccagATTTACTTTCTTGCATGCCCCAAAGGAAATGCGCAGTAAAAATGTGGAAGCATTACGAACTCTGCTGGCTCTATGTGACTCAGAGACCAACTCTCTTCAA
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gtatatgtgttcctgtaccccccatcccacatccctcaaaaaactgtcgctttgattatcgtaagttatttgctttttctttattttgacatgctagggaagtagcatgctttgtgcatgagtacaggatgacaactttgatgtttggtgcagttgacaatattcatttagtttctttgttgacacctcagGTTTACTTTCTTGCATGCCCCCAAGGAAATGCGCAGTAAAAATGTGGAAGCTTTGCGGACACTGTTGGTTCTATGTGACTCAGACATGAACTCTCTTCAA
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 21
-----------------------------------------------------------------------------------------------aacttattagttca--tgaagacattgtata-aagtattattgctatttgtttatctaattacttc--ttaaccataactaatatgcttttaagttttatcccagATTTACTTTCTTGCATGCCCCAAAGGAAATGCGCAGTAAAAATGTGGAAGCATTACGAACTCTGCTGGCTCTATGTGACTCAGAGACCAACTCTCTTCAA
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gtatatgttcctgtagcccccatcccacatccctaaaaaaactgtccctgtgattatcataagttatttgcttttttttttattattattattttgacatgctaggtaagtttcatgctttgtggatgagaatacaggatggcaactttgatgtttggtacagttgacaatgttcattagtttctttgttgacacctcagGTTTACTTTCTTGCATGCCCCCAAGGAAATGCGCAGTAAAAATGTGGAAGCTTTGCGTACACTGTTGGTTCTATGTGACTCAGACATGAACGCTCTTCAA
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 20
---------------------------------------aacttattagttcatgaagacattgtataaagtattattgctatttgt------ttatctaattacttcttaac-cataactaatatgcttttaagttttatcc-cagATTTACTTTCTTGCATGCCCCAAAGGAAATGCGCAGTAAAAATGTGGAAGCATTACGAACTCTGCTGGCTCTATGTGACTCAGAGACCAACTCTCTTCAA
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gtaaactcgtaaaacttatttcacactcccttttatgtttagtgttgaatatatatttaggttgcattgtatattggcagtttgtgtagaatattgtgccattgctgcgcaatgcatgttgactatttttctttgaattgtccatagGTTCACTTTCTTGCATGCTCCAAAAGAAATGCGGAGCAAAAATGTTGAAGCATTGAGGATATTACTGGGGTTGTGTGACTCAGAACCTGACACCCTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttatctaattacttcttaaccataactaatatgcttttaagttttatcccagATTTACTTTCTTGCATGCCCCAAAGGAAATGCGCAGTAAAAATGTGGAAGCATTACGAACTCTGCTGGCTCTATGTGACTCAGAGACCAACTCTCTTCAA
aactaat putative branch site (score: 2)
ttttatccc putative PPT
taatatgcttttaagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacttattagttcatgaagacattgtataaagtattattgctatttgtttatctaattacttcttaaccataactaatatgcttttaagttttatcccagATTTACTTTCTTGCATGCCCCAAAGGAAATGCGCAGTAAAAATGTGGAAGCATTACGAACTCTGCTGGCTCTATGTGACTCAGAGACCAACTCTCTTCAA
- - - - -gttcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaccata