Variant report

Variant	rs12281959
Chromosome Location	chr11:67356789-67356790
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:67354037..67356908-chr11:67394596..67396788,2	K562	blood:
2	chr11:67355448..67359468-chr11:67373410..67375922,3	MCF-7	breast:
3	chr11:67351136..67354187-chr11:67356104..67360261,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GSTP1-1	chr11:67356242-67357726	NONHSAT022444

Variant related genes	Relation type
ENSG00000255318	Chromatin interaction
ENSG00000084207	Chromatin interaction
ENSG00000167792	Chromatin interaction
ENSG00000184224	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10082595	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10896187	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227843	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227847	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227853	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227856	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227858	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227859	1.00[AMR][1000 genomes]
rs11227863	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227864	1.00[AMR][1000 genomes]
rs11227867	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11227870	1.00[AMR][1000 genomes]
rs11227872	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11501414	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12271238	0.85[AFR][1000 genomes]
rs12271246	1.00[AMR][1000 genomes]
rs12273818	0.84[AFR][1000 genomes]
rs12275583	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12279654	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12279771	1.00[AMR][1000 genomes]
rs12283583	1.00[AMR][1000 genomes]
rs12283777	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12285190	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12285568	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12286629	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12287042	0.81[AFR][1000 genomes]
rs12288767	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12288862	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12291861	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12294605	1.00[AMR][1000 genomes]
rs12295232	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28856416	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28894705	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6591248	0.82[AFR][1000 genomes]
rs7112719	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7129806	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7940179	1.00[AMR][1000 genomes]
rs7945411	1.00[AMR][1000 genomes]
rs7952329	1.00[AMR][1000 genomes]
rs8191431	0.85[AFR][1000 genomes]
rs8191448	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531397	chr11:66653381-67465721	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1043037	chr11:67027193-67357425	Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
3	nsv897801	chr11:67033076-67432479	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
4	nsv897807	chr11:67155210-67414492	Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	176 gene(s)	inside rSNPs	diseases
5	nsv897808	chr11:67155210-67419855	Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	176 gene(s)	inside rSNPs	diseases
6	nsv534229	chr11:67164667-67411909	Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
7	esv2422195	chr11:67234322-67626901	Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	146 gene(s)	inside rSNPs	diseases
8	nsv1041988	chr11:67319916-67749246	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
9	nsv897814	chr11:67339949-67460529	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
10	nsv1050463	chr11:67343421-67717338	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
11	nsv1038189	chr11:67345320-67749246	Transcr. at gene 5' and 3' Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
12	nsv1047236	chr11:67345320-67764068	Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
13	nsv555268	chr11:67346743-67752972	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
14	nsv1036101	chr11:67346813-67828351	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
15	nsv541079	chr11:67346813-67828351	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
16	nsv897815	chr11:67347595-67408791	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
17	nsv1053811	chr11:67349444-67749246	Active TSS Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
18	esv1817852	chr11:67349899-67626567	Strong transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription Bivalent Enhancer 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 target site	69 gene(s)	inside rSNPs	diseases
19	nsv468606	chr11:67352689-67816936	Active TSS Flanking Bivalent TSS/Enh Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
20	nsv555269	chr11:67352689-67816936	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
21	nsv897816	chr11:67353579-67460529	Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:67351800-67358600	Weak transcription	Primary T cells from cord blood	blood
2	chr11:67352600-67358400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr11:67352600-67359800	Weak transcription	Right Atrium	heart
4	chr11:67352600-67360200	Weak transcription	Brain Angular Gyrus	brain
5	chr11:67352800-67357000	Weak transcription	NHDF-Ad	bronchial
6	chr11:67353000-67357400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr11:67353200-67357000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr11:67353200-67357000	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr11:67353200-67357000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr11:67353200-67357200	Weak transcription	Colon Smooth Muscle	Colon
11	chr11:67353200-67357600	Strong transcription	Adipose Nuclei	Adipose
12	chr11:67353200-67358800	Weak transcription	Fetal Brain Male	brain
13	chr11:67353400-67356800	Weak transcription	Fetal Heart	heart
14	chr11:67353400-67357000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr11:67353600-67358400	Enhancers	Primary B cells from peripheral blood	blood
16	chr11:67353800-67357600	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr11:67354000-67356800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr11:67354000-67357000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr11:67354000-67357000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr11:67354000-67357000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr11:67354000-67358400	Weak transcription	Pancreas	Pancrea
22	chr11:67354200-67356800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr11:67354200-67356800	Strong transcription	Fetal Muscle Trunk	muscle
24	chr11:67354200-67357400	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr11:67354200-67358400	Weak transcription	Brain Hippocampus Middle	brain
26	chr11:67354200-67358400	Weak transcription	Fetal Thymus	thymus
27	chr11:67354200-67358600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr11:67354200-67358800	Weak transcription	Thymus	Thymus
29	chr11:67354200-67359600	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr11:67354400-67357000	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr11:67354400-67357000	Strong transcription	A549	lung
32	chr11:67354400-67357600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr11:67354600-67356800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr11:67354600-67356800	Strong transcription	Fetal Intestine Small	intestine
35	chr11:67354600-67357000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr11:67354600-67357000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
37	chr11:67354600-67357000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr11:67354600-67357000	Strong transcription	Fetal Stomach	stomach
39	chr11:67354600-67357000	Strong transcription	Lung	lung
40	chr11:67354600-67357200	Weak transcription	Primary hematopoietic stem cells	blood
41	chr11:67354600-67357200	Weak transcription	Placenta	Placenta
42	chr11:67354600-67358200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr11:67354600-67358400	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr11:67354600-67358600	Weak transcription	Colonic Mucosa	Colon
45	chr11:67354600-67359000	Weak transcription	Brain Substantia Nigra	brain
46	chr11:67354600-67359000	Weak transcription	Left Ventricle	heart
47	chr11:67354600-67359200	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr11:67354600-67359800	Weak transcription	Spleen	Spleen
49	chr11:67354600-67360400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr11:67354600-67360400	Weak transcription	Esophagus	oesophagus

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