Sequence
atgc intronic sequence ATGC exonic sequencegtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g03800.1 (Oryza sativa), 3'ss of exon 1
gtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
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---ggagaaaaaaattcagctgctgttcaatctctgaacaatcgatatgtt--ctgaattcttaccagttttgacagtgttcaactaaccaaactgtgtgct---------cagATTGCTGCATTGCTGCTGGAGAATGGAGCAGATGTGAATGCGAGGAACATCTATGGACAG
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G38270.1 (Glycine max), 3'ss of exon 1
gtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
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------------------gtccctttat-ttcactt-tttatatctaatccaatataatctaatgcaaccctt---tttacttattcatttatttctgttgggttttctgttagATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G29590.1 (Glycine max), 3'ss of exon 1
gtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
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----------------------------gtccctttatttcactttttttacatctaatccaaccctttaatttatttatttttctctgttggttttctgtt----------agATTGTGGCATTGTTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTATTGTGGCCAG
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G32090.1 (Glycine max), 3'ss of exon 1
---------gtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtg--ttgtacttgcgttgattttttttcctggttttgtgttgttg----ttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
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gtttcaattctcaatctcaaccaccccttttttcgtttttctcattttcat-gtttgaaagtcttttttttttctcttccgttttcatcgaccccctttt-tgattttgtttatctgggtttctgttagATTGTGGCATTGTTGCTTGAAAATGGAGCTGATGTGAATTCGAGAAATTACTGTGGGCAG
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G26560.1 (Glycine max), 3'ss of exon 1
gtcgttttccgcttctca--ctcctttgatactcactgattcatcgtttttttgaccc-ggtaaagtgttgtacttgc--gttgattt----tttttcctggttttgtgttgttg----ttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
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-----gtttcaattctcaatctcaatcacttcttttttttttttcgtttttttcattttggtgagtttctgtttttaccggttttcttcgactcccttctgattttgtttatctgggtttctcttagATTGTGGCATTGTTGCTTGAAAATGGAGCTGATGTGAATTCGAGAAATTATTGTGGGCAG
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G07270.1 (Arabidopsis thaliana), 3'ss of exon 1
gtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
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--------------gtttctttttcactcttcattg-ctcataattttactgttctcg---aatttttaatataaagttttctcttttaccgatat-gtgatgtt-------agATCGTCGGATTGTTGCTCGAGAACGGAGCTGATGTGAATTCCAGAAATTATTGCGGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
cgttgat putative branch site (score: 5)
ttgatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcgttttccgcttctcactcctttgatactcactgattcatcgtttttttgacccggtaaagtgttgtacttgcgttgattttttttcctggttttgtgttgttgttgagtagATTGTTGCTTTGCTGCTGGAGAATGGAGCTGATGTGAATTCCAGAAATTACTGTGGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT