Variant report

Variant	rs2241563
Chromosome Location	chr19:42660833-42660834
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:42654491..42657186-chr19:42658752..42660971,2	MCF-7	breast:
2	chr19:42646958..42649081-chr19:42658842..42661331,2	MCF-7	breast:
3	chr19:42659646..42661683-chr19:42683231..42685564,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF526-1	chr19:42659859-42661675	ENSG00000249075

Variant related genes	Relation type
ENSG00000259436	Chromatin interaction
ENSG00000252356	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs28364793	0.80[JPT][hapmap]
rs55660965	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61750871	1.00[EUR][1000 genomes]
rs73932874	0.91[AFR][1000 genomes]
rs73932875	0.91[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522854	chr19:42120283-42931004	Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv520239	chr19:42357455-42931004	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
3	esv1805469	chr19:42367635-42798851	Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
4	nsv911782	chr19:42514712-42931004	Bivalent/Poised TSS Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
5	esv1794508	chr19:42580026-42791462	Strong transcription Active TSS Genic enhancers Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
6	nsv1055554	chr19:42619671-42821642	Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	53 gene(s)	inside rSNPs	diseases
7	nsv833833	chr19:42657276-42783122	Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42653200-42661200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr19:42656400-42661200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr19:42657400-42676400	Weak transcription	Gastric	stomach
4	chr19:42658000-42662400	Weak transcription	Pancreas	Pancrea
5	chr19:42658600-42662600	Weak transcription	Liver	Liver
6	chr19:42659200-42663600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr19:42659400-42663400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr19:42659400-42663400	Weak transcription	Spleen	Spleen
9	chr19:42659600-42664400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr19:42659800-42661400	Weak transcription	Primary T cells from cord blood	blood
11	chr19:42659800-42663600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr19:42659800-42664000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr19:42660000-42663000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr19:42660000-42669400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr19:42660200-42662000	Strong transcription	Primary B cells from peripheral blood	blood
16	chr19:42660200-42662800	Weak transcription	Primary B cells from cord blood	blood
17	chr19:42660400-42669200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr19:42660600-42662000	Genic enhancers	Brain Germinal Matrix	brain
19	chr19:42660800-42661200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr19:42660800-42663400	Strong transcription	Fetal Brain Female	brain

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