Variant report

Variant	rs11572061
Chromosome Location	chr6:44416077-44416078
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11571890	0.82[AFR][1000 genomes]
rs11571892	0.82[AFR][1000 genomes]
rs11571899	0.82[AFR][1000 genomes]
rs11571902	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs11571952	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs11571959	0.82[AFR][1000 genomes]
rs11571965	0.82[AFR][1000 genomes]
rs11571966	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs11571967	0.85[YRI][hapmap];0.94[AFR][1000 genomes]
rs11571981	0.85[YRI][hapmap];0.94[AFR][1000 genomes]
rs11571986	0.85[YRI][hapmap];0.94[AFR][1000 genomes]
rs11572001	0.85[YRI][hapmap];0.94[AFR][1000 genomes]
rs11572004	1.00[LWK][hapmap];1.00[MKK][hapmap];0.94[AFR][1000 genomes]
rs11572013	0.94[AFR][1000 genomes]
rs11572017	0.94[AFR][1000 genomes]
rs11572023	1.00[LWK][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.94[AFR][1000 genomes]
rs11572033	0.94[AFR][1000 genomes]
rs11572036	1.00[LWK][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.94[AFR][1000 genomes]
rs11572044	0.94[AFR][1000 genomes]
rs11572049	0.82[AFR][1000 genomes]
rs11572050	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019145	chr6:44313576-44421440	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv885858	chr6:44385441-44421240	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv885859	chr6:44385441-44422466	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv517370	chr6:44385441-44422689	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	esv1850024	chr6:44388505-44422689	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11572061	GSTM1	trans	lymphoblastoid	seeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44376800-44424400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:44388400-44424400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr6:44390200-44420200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr6:44396600-44432800	Weak transcription	Fetal Kidney	kidney
5	chr6:44398600-44419600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:44407800-44416200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:44407800-44419800	Weak transcription	HSMMtube	muscle
8	chr6:44409200-44416400	Strong transcription	Rectal Mucosa Donor 29	rectum
9	chr6:44410000-44416600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr6:44410000-44424400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:44410000-44424400	Weak transcription	Colonic Mucosa	Colon
12	chr6:44410000-44424400	Weak transcription	Spleen	Spleen
13	chr6:44410200-44417200	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr6:44410200-44422200	Weak transcription	Fetal Brain Male	brain
15	chr6:44411000-44416200	Strong transcription	Fetal Thymus	thymus
16	chr6:44411200-44416400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:44411400-44416200	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr6:44411400-44416200	Strong transcription	Duodenum Mucosa	Duodenum
19	chr6:44411400-44416600	Strong transcription	Primary T helper cells PMA-I stimulated	--
20	chr6:44411400-44417200	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr6:44411400-44417200	Strong transcription	Dnd41	blood
22	chr6:44411400-44417800	Strong transcription	Fetal Intestine Large	intestine
23	chr6:44411600-44416200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:44411600-44416800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:44411600-44417200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:44411600-44417200	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr6:44411800-44417200	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr6:44411800-44417200	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr6:44411800-44418400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr6:44412000-44416200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr6:44412000-44416200	Strong transcription	Duodenum Smooth Muscle	Duodenum
32	chr6:44412000-44416200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr6:44412000-44416400	Strong transcription	Placenta	Placenta
34	chr6:44412000-44416600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr6:44412000-44417200	Strong transcription	Primary B cells from cord blood	blood
36	chr6:44412000-44417200	Strong transcription	Primary B cells from peripheral blood	blood
37	chr6:44412000-44417200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr6:44412000-44417200	Strong transcription	Liver	Liver
39	chr6:44412000-44425800	Weak transcription	Esophagus	oesophagus
40	chr6:44412200-44417200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr6:44412200-44417200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:44412200-44424600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr6:44412200-44424600	Weak transcription	Gastric	stomach
44	chr6:44412400-44416200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
45	chr6:44412400-44424200	Weak transcription	Fetal Intestine Small	intestine
46	chr6:44412600-44416400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:44412600-44416800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr6:44412600-44424600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr6:44412800-44416200	Strong transcription	Fetal Muscle Leg	muscle
50	chr6:44412800-44416400	Strong transcription	K562	blood

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