Sequence
atgc intronic sequence ATGC exonic sequence...atgagctgtgaaattctgagttgtcatccgcatgtggtttataatgtaggtcttctattgatcccatttgttctgataaaatttttatatatcatctcagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 3'ss of exon 5
-----atgagctgtgaaattctgagttgtcatccgcatgtggtttataatgtaggtcttctattgatcccatttgttctgataaaatttttatatatcatctcagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
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tgcaaatgaagt-tcaaacacagatttgttgcc----tttggtattttatgcgattttcattatgactcttggtataattttcttgtattttttccacttttcagGCCATTTGACATCAAAGAGTGATGTCTATAGTTTTGGTGTGGTGCTACTTGAGATGATGTCAGGGCGCAGGTCAATGGACAAGAACCGCCCAAATGGTGA
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G16300.1 (Glycine max), 3'ss of exon 6
-atgagctgtgaaattctgagttgtcatccgcatgtggtttataatgtaggtcttctattgatcccatttgttctgataaaatttttatatatcatctcagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
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tatatactcataatgattaaagcttccaaaatattctgcatgtaatccaacatgtgtagtgtctaatccttatgtaatcagatttatattt-ttgtggcagGACATCTTACATCAAGAAGTGATGTGTATAGTTTCGGAGTGGTACTACTTGAGATGTTGACTGGCAGAAGATCTATGGACAAAAACCGACCCAACGGTGA
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G40770.1 (Glycine max), 3'ss of exon 5
-atgagctgtgaaattctgagttgtcatccgcatgtggtttataatgtaggtcttctattgatcccatttgttctgataaaatttttatatatcatctcagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
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tgcatactcataattattaaagcttccaaaatattctgcatgtaatgcaacatgtgtaatgtctaatccttatctaatcagattcatattt-ttgtggcagGACATCTTACATCAAGAAGTGATGTGTACAGTTTCGGAGTGGTACTACTTGAGATGTTGACCGGCAGAAGATCGATGGACAAAAACCGGCCCAACGGTGA
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 5
-atgagctgtgaa-attctgagttgtcatccgcatgtggtttataa--tgtaggtcttctattgatcccatttgttctgataaaatttttatatatcatct-cagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
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tttcagttatgtttgttctaaactctt-tttaaatgcagtccaacacctgtaaatatctaattgcttccatt----ctaatcagatttactcatgtggtttgcagGTCATCTTACATCAAAAAGTGATGTGTACAGTTTTGGAGTGGTACTACTTGAGATGTTGACCGGCAGAAGATCCATGGACAAACACCGACCCAATGGTGA
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G02570.1 (Glycine max), 3'ss of exon 5
-atgagctgtgaa-attctgagttgtcatccgcatgtggtttataatgtaggtcttctattgatcccatttgttctgataaaatttttatatatcatctcagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
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tttcagttatgtttgttctaaattctttttag-acgcaatccaacatctgtagtatctatttgcttccattctaatcaagatttactcgtgtgtt-tggcagGTCATCTTACATCAAAAAGTGATGTGTACAGTTTCGGAGTGGTACTACTTGAGATGTTGACCGGCAGAAGATCCATGGACAAACACCGACCCAACGGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaggtcttctattgatcccatttgttctgataaaatttttatatatcatctcagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
ttctgat putative branch site (score: 3)
tcatctc putative PPT
atttgttctgataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgagctgtgaaattctgagttgtcatccgcatgtggtttataatgtaggtcttctattgatcccatttgttctgataaaatttttatatatcatctcagGACATTTGACATCAAGGAGTGATGTCTATAGTTTTGGTGTGGTTCTACTAGAAATGCTGACTGGCAGAAGATCCATGGACAAAAACCGGCCAAATGGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - catccgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gataaaa