Variant report

Variant	rs16896995
Chromosome Location	chr8:99450267-99450268
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:27340912..27341732-chr8:99449571..99450562,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KCNS2-2	chr8:99448897-99451518	ENSG00000272321.1

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10282835	1.00[ASN][1000 genomes]
rs11785588	1.00[ASN][1000 genomes]
rs12386830	1.00[ASN][1000 genomes]
rs13277523	1.00[ASN][1000 genomes]
rs16897028	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897058	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897069	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28621642	1.00[ASN][1000 genomes]
rs34018826	1.00[ASN][1000 genomes]
rs4554439	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4574821	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4615538	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55793219	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55807423	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55921088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55947965	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56185259	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56214625	1.00[ASN][1000 genomes]
rs56246659	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56290864	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56356780	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6982282	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6982285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666612	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666616	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666638	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666642	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666643	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666649	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666652	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666655	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666661	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666665	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666666	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666673	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666676	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666678	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666680	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666684	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666685	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73699303	1.00[ASN][1000 genomes]
rs7835203	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7839115	1.00[ASN][1000 genomes]
rs7842869	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032904	chr8:98756076-99476925	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv539687	chr8:98756076-99476925	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv831406	chr8:99290745-99482076	Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1034492	chr8:99436341-99456516	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:99441400-99451600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr8:99441400-99451800	Weak transcription	Brain Anterior Caudate	brain
3	chr8:99441400-99458000	Weak transcription	Ovary	ovary
4	chr8:99441400-99472600	Weak transcription	Pancreas	Pancrea
5	chr8:99442000-99451600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr8:99449200-99451800	Enhancers	Osteobl	bone
7	chr8:99449400-99451200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr8:99449400-99451800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr8:99449600-99450600	Enhancers	Liver	Liver
10	chr8:99449600-99450800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr8:99449600-99450800	Enhancers	HSMMtube	muscle
12	chr8:99449600-99453200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr8:99450000-99451000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr8:99450000-99451400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr8:99450200-99451000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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