Sequence
atgc intronic sequence ATGC exonic sequence...tgtgtctctgcttctaactcaaaagtaattggttgataaattgctttcaagcttctaatttgcaaactaactcatgatcctgagcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os10g36490.1 (Oryza sativa), 3'ss of exon 9
tgtgtctctgcttctaactcaaaagtaattggttgataaattgctttcaagct-tctaatttgcaaactaactcatgatcctgagcatatatt-tcttccagATAAGCAGACAAGGTTTGTT-GGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
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-gtaagagatccatttatctagattatctcttgtaatactttttatctgaattgtttaccctataaactcctttgca----tgggtgttcattattctatagACATGCAGA-AAGCTCTGTCAGGAATTGTTCCTGCAATTGAAAAGGCACGCCTTTATCGAGGTAAAGGAGGAGAGATAATGCGTTCTGCTGTTTCCCGATT
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 10
tgtgtctctgcttctaactcaaaagtaattggttgataaattgctttcaagcttctaatttgcaaactaactcatgat-cctgagcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
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actggtcatatgtttaaatctttctttattgaa-ggtgattggtttcaaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G24470.1 (Glycine max), 3'ss of exon 11
tgtgtctctgcttctaactcaaaagtaattggttgataaattgctttcaagcttctaatttgcaaactaactcatgat-cctgagcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
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aatggtcatatggttaaacctttctttactgaa-ggtgattagtttcaaaatatttatgatgctagctgaactttgacatttttgaaattgccattgacagATAAACAGAGAAGTCTTGCTGGCGTTGCTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------------------------------------------------------------tgtgtctctgcttctaactcaaaagt--aattggttgataaattgc-----tttcaagcttctaatttgcaaac----taactcatgatcctga-gcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
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gttagtaccatctattttttcagctttggcttttgtggcacctttgcatatggaaagtcaaaaatatgggcaccatcttggaatctagactttgtaagcggatttttaatcagatgaaaaattaacagagtttgatggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaagcttctaatttgcaaactaactcatgatcctgagcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
aactaac putative branch site (score: 1)
tatttcttcc putative PPT
atatatttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgtctctgcttctaactcaaaagtaattggttgataaattgctttcaagcttctaatttgcaaactaactcatgatcctgagcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - -ctgcttc
- - - - - - - - - - aaaagta
- - - - - - - - - - - - - - -tggttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagcata