Variant report

Variant	rs55641883
Chromosome Location	chr3:53700082-53700083
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs33970402	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55881044	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58036565	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58236730	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6765947	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72967859	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72967878	1.00[AMR][1000 genomes]
rs72978521	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978526	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978528	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978531	1.00[AMR][1000 genomes]
rs72978534	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73842064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7633188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1001128	chr3:53659570-53927842	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1013783	chr3:53694418-53934781	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53683200-53744200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:53689600-53707400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:53692000-53707600	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:53694200-53700400	Strong transcription	Fetal Intestine Large	intestine
5	chr3:53694400-53701000	Weak transcription	Fetal Kidney	kidney
6	chr3:53696000-53700200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr3:53696800-53706600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:53697600-53702400	Weak transcription	Liver	Liver
9	chr3:53698000-53714000	Weak transcription	Brain Substantia Nigra	brain
10	chr3:53698800-53711200	Weak transcription	Spleen	Spleen
11	chr3:53699000-53700200	Weak transcription	Brain Angular Gyrus	brain
12	chr3:53699000-53700200	Weak transcription	Fetal Intestine Small	intestine
13	chr3:53699400-53700200	Weak transcription	Pancreas	Pancrea
14	chr3:53700000-53700600	Strong transcription	Duodenum Mucosa	Duodenum
15	chr3:53700000-53700800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:53700000-53700800	Strong transcription	Pancreatic Islets	Pancreatic Islet
17	chr3:53700000-53703400	Strong transcription	Fetal Lung	lung

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links