Sequence
atgc intronic sequence ATGC exonic sequence...tatcacaatgaaatacaaacattctttttccatgggatgtccaaacatgtgcttagtgaatgaattttaagagtttatagttaatttatgcatgtttcagGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G28200.1 (Glycine max), 3'ss of exon 9
tatcacaatgaaatacaaacattc-tttttccatgggatgtccaaacatgtgcttagtgaatgaattttaagagtttatagttaatttatgcatgtttcagGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
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tccttcaaataattttatcaactcattccttcaaattaattggcaatatttcctttattatt-attctatagaatttatgttgaatttttatatattatagGTTTATGGTGTGGCTTCTGAAGACATGGATTCCTTAACATTTGGAGCTCCTAAATTTCTTCGCCACCTAATGGATCCAAGCTCAAAAAAAATTCCAGTGA
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G22190.3 (Glycine max), 3'ss of exon 9
--tatcacaatgaaatacaaacattctttttccatgggatgtccaaacatgtgcttagtgaatgaatttta-agagtttatagttaatttatgcatgtttcagGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
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gccttcatatcattttatcaactcattccttcaaattaattggcaacatttccttcaatataaactttctgtagaatttatgttgaatgttt---tattatagGTTTATGCTGTGGCTTCTGAAGACATGGATTCCTTAACATTTGGATCTCCTAAATTTCTTCGCCACCTAATGGATCCAAGCTCAAAAAAAATTCCAGTGA
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G26680.1 (Arabidopsis thaliana), 3'ss of exon 9
tatcacaatgaaat-acaaacattctttttc-catgggatgtccaaa--catgtgcttagtgaatg-aattttaagagt---------ttatagttaatttatgcatgtttcagGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
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-gtcttaattcttttgtttgttctctttttcgcgtttaactgtcagtttcaagtgaccactgtcttcaatcttatatgcgatgcttccttatgaaacgcttttgtctgttt-agGTTTATGGTGTGGCTTCTGAAGATATGGATTCCTTGACTTTTGGAGCTCCTAAGTTTCTTCGCCACCTGATGGATCCTAGCTCCAGAAAGATCCCTGTCA
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ10540 (Selaginella moellendorffii), 3'ss of exon 8
tatcacaatgaaatacaaacattctttttccatgggatgtccaaacatgtgcttagtgaatgaattttaagagtttatagttaatttatgcatgtttc--agGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
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-------------------------------gttcgatctctc--tatctctccagtttcgatctttctcgtctttgaatctactgcggttttgttccgcagGTTTATGCCGTGGCTTCTGAAGACATGGATTCCCTTACCTTTGGAAGTCCGAGATTCTTACGGCACCTCATGGAGCCAGCTTCTCGTAAAATACCAGTTA
upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ19284 (Selaginella moellendorffii), 3'ss of exon 8
tatcacaatgaaatacaaacattctttttccatgggatgtccaaacatgtgcttagtgaatgaattttaagagtttatagttaatttatgcatgtttcagGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
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--------------------gttcgatctctctatc-tctccagttcgatctttctcg-------tctttgaatctactgcggttttgttc----cgcagGTTTATGCCGTGGCTTCTGAAGACATGGATTCCCTTACCTTTGGAAGTCCGAGATTCTTACGGCACCTCATGGAGCCAGCTTCTCGTAAAATACCAGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtgcttagtgaatgaattttaagagtttatagttaatttatgcatgtttcagGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
agttaat putative branch site (score: 4)
aatgaattttaagagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatcacaatgaaatacaaacattctttttccatgggatgtccaaacatgtgcttagtgaatgaattttaagagtttatagttaatttatgcatgtttcagGTCTATGCTGTGGCTTCTGAAGACATGGATTCCCTAACTTTTGGAGCTCCTAAATTTCTTCGTCACTTAATGGACCCTAGCTCAAGAAAAATCCCAGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - -gaaatac
- - - - - - - - - - - - - - tccatgg
- - - - - - - - - - - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - -tgcttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgaat