Sequence
atgc intronic sequence ATGC exonic sequence...ggactcatgtagtggacaacatatgcttcttgccatggttattttatgccaaatgcaatgttctttacttgaccaaattttttttccctgaatgatccagGTTGCAATTTTGCTTCTCACTGAAATTACTCCAAAAAGCCTAGCTGTCCATAATGCCACAGAGGTTGCTAGGTTTGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g39640.1 (Oryza sativa), 3'ss of exon 3
ggactcatgtagtggacaacatatgcttcttgccatggttattttatgccaaatgcaatgttctttacttgaccaaattttttttccctgaatgatccagGTTGCAATTTTGCTTCTCACTGAAATTACTCCAAAAAGCCTAGCTGTCCATAATGCCACAGAGGTTGCTAGGTTTGTG-----
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----gtatgtcgtctcttttgcactgatctactcataataaaaa-atgttc--tcttatgtttatatgacgtctaactgtggagccccaccttttttcagGTCGCCATCTTACTTCTTACAGAAATCACACCCAAAAGTGTTGCAGTTCATAATGCTACAGAGGTTGCTAGGTTTGTTGTAAG
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G01920.1 (Glycine max), 3'ss of exon 3
--ggactcatg-tagtggacaacatatgcttcttgccatggttattttatgccaaatgcaatgttctttacttgaccaaattttttt-tccctgaatgatccagGTTGCAATTTTGCTTCTCACTGAAATTACTCCAAAAAGCCTAGCTGTCCATAATGCCACAGAGGTTGCTAGGTTTGTG
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ttgatcacagaacagtgcatatggtgtgcaagtttgtatgctt-tcttat---aatttttttctcatatatctgatttcttttttctctttgtaatcaaacaagGTTGCCATTTTGCTTCTCACTGAAATCACTCCAAAAAGCATAGCTGTTCATAATGCCACAGAAGTGGCTCGGTTTGTG
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G46780.1 (Glycine max), 3'ss of exon 3
ggactcatgtagtggacaacatatgcttcttgccatggttattttatgccaaatgcaatgttctttacttgaccaaattttttttccct------gaatgatccagGTTGCAATTTTGCTTCTCACTGAAATTACTCCAAAAAGCCTAGCTGTCCATAATGCCACAGAGGTTGCTAGGTTTGTG
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----tgat-cacagaacagtgcatatggtgtgc-aggtttgtatgttttcatataattttttttttcatatatctaatttctttcttctctttgtaatcaaacaagGTTGCCATTTTGCTTCTCACTGAAATCACTCCAAAAAGCATAGCTGTTCATAACGCCACAGAGGTGGCTCGGTTTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgccaaatgcaatgttctttacttgaccaaattttttttccctgaatgatccagGTTGCAATTTTGCTTCTCACTGAAATTACTCCAAAAAGCCTAGCTGTCCATAATGCCACAGAGGTTGCTAGGTTTGTG
acttgac putative branch site (score: 4)
ttttttttccctga putative PPT
accaaatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggactcatgtagtggacaacatatgcttcttgccatggttattttatgccaaatgcaatgttctttacttgaccaaattttttttccctgaatgatccagGTTGCAATTTTGCTTCTCACTGAAATTACTCCAAAAAGCCTAGCTGTCCATAATGCCACAGAGGTTGCTAGGTTTGTG
- - tcatgta
- - - - - - - - - -catatgc
- - - - - - - - - - - - - - cttgcca
- - - - - - - - - - - - - - - - - - - - - - - - ccaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaccaaa