Variant report

Variant	rs4959669
Chromosome Location	chr6:2453470-2453471
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12529088	0.80[CEU][hapmap]
rs13194198	0.82[EUR][1000 genomes]
rs13198172	0.89[EUR][1000 genomes]
rs17135028	0.82[EUR][1000 genomes]
rs17536894	0.91[EUR][1000 genomes]
rs17608626	0.80[CEU][hapmap]
rs17609498	0.92[EUR][1000 genomes]
rs2073004	0.82[EUR][1000 genomes]
rs34077848	0.84[EUR][1000 genomes]
rs34610626	0.91[EUR][1000 genomes]
rs34854900	0.87[EUR][1000 genomes]
rs34901328	0.91[EUR][1000 genomes]
rs34996746	0.89[EUR][1000 genomes]
rs35182831	0.92[EUR][1000 genomes]
rs35658601	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35892674	0.91[EUR][1000 genomes]
rs35918040	0.84[EUR][1000 genomes]
rs3734504	0.80[CEU][hapmap]
rs3734505	0.80[CEU][hapmap]
rs4959184	0.82[EUR][1000 genomes]
rs4959663	0.80[CEU][hapmap]
rs4959668	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55939357	0.88[EUR][1000 genomes]
rs56343276	0.91[EUR][1000 genomes]
rs59493792	0.91[EUR][1000 genomes]
rs6911665	0.80[CEU][hapmap]
rs71552124	0.92[EUR][1000 genomes]
rs9501836	0.80[CEU][hapmap]
rs9503185	0.80[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531295	chr6:1773436-2724986	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
2	nsv883388	chr6:2093432-2514911	Strong transcription Enhancers ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
3	nsv883389	chr6:2093432-2776303	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	87 gene(s)	inside rSNPs	diseases
4	nsv1021573	chr6:2246721-2832408	Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	80 gene(s)	inside rSNPs	diseases
5	nsv538102	chr6:2246721-2832408	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	80 gene(s)	inside rSNPs	diseases
6	nsv883390	chr6:2265344-2584919	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
7	nsv883391	chr6:2282747-2507448	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
8	nsv1016878	chr6:2375784-2680476	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
9	nsv498004	chr6:2380300-3313587	Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	163 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:2417600-2454200	Weak transcription	Pancreas	Pancrea
2	chr6:2449600-2454600	Weak transcription	Fetal Kidney	kidney
3	chr6:2449600-2455800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:2449600-2460400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:2449600-2460400	Weak transcription	Fetal Brain Female	brain
6	chr6:2449600-2461200	Weak transcription	Stomach Smooth Muscle	stomach
7	chr6:2449800-2455200	Weak transcription	Brain Angular Gyrus	brain
8	chr6:2450200-2454000	Weak transcription	Brain Substantia Nigra	brain
9	chr6:2450200-2460400	Weak transcription	Brain Anterior Caudate	brain

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