Variant report

Variant	rs11155496
Chromosome Location	chr6:100988939-100988940
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10457808	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10457809	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10782302	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs108422	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11155498	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11155596	0.81[ASN][1000 genomes]
rs12190903	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12191199	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12192249	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12199888	0.81[ASN][1000 genomes]
rs12200565	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12206182	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12206564	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12206945	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12374612	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12660725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs151573	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs151637	0.81[ASN][1000 genomes]
rs151638	0.82[ASN][1000 genomes]
rs17303769	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1875400	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1875401	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2001102	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2036052	0.81[ASN][1000 genomes]
rs2062634	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2062635	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs239190	0.81[ASN][1000 genomes]
rs239194	0.81[ASN][1000 genomes]
rs239195	0.81[ASN][1000 genomes]
rs239197	0.81[ASN][1000 genomes]
rs239199	0.81[ASN][1000 genomes]
rs239201	0.81[ASN][1000 genomes]
rs239203	0.81[ASN][1000 genomes]
rs239204	0.81[ASN][1000 genomes]
rs239206	0.81[ASN][1000 genomes]
rs239207	0.81[ASN][1000 genomes]
rs239211	0.81[ASN][1000 genomes]
rs239212	0.81[ASN][1000 genomes]
rs239219	0.81[ASN][1000 genomes]
rs239222	0.81[ASN][1000 genomes]
rs239226	0.81[ASN][1000 genomes]
rs239227	0.81[ASN][1000 genomes]
rs239229	0.81[ASN][1000 genomes]
rs239230	0.81[ASN][1000 genomes]
rs239231	0.81[ASN][1000 genomes]
rs239232	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs239235	0.81[ASN][1000 genomes]
rs239237	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs239238	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs239239	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs239242	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs239245	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs239246	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs239247	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs239248	0.82[ASN][1000 genomes]
rs239249	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2398132	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs240110	0.86[ASN][1000 genomes]
rs240112	0.86[ASN][1000 genomes]
rs240115	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs240141	0.82[ASN][1000 genomes]
rs240143	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs240145	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs240146	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs240147	0.82[ASN][1000 genomes]
rs240148	0.82[ASN][1000 genomes]
rs240150	0.82[ASN][1000 genomes]
rs240153	0.84[ASN][1000 genomes]
rs240154	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs240156	0.86[ASN][1000 genomes]
rs240164	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs240764	0.88[EUR][1000 genomes]
rs370757	0.81[ASN][1000 genomes]
rs395521	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4461738	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs454747	0.81[AMR][1000 genomes]
rs62422675	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6907240	0.81[ASN][1000 genomes]
rs7740826	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1023710	chr6:100810738-101001115	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv538388	chr6:100810738-101001115	Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv886444	chr6:100961198-101084946	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv604263	chr6:100980874-101078718	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv981170	chr6:100988799-100994802	Weak transcription Strong transcription ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11155496	ASCC3	cis	cerebellum	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:100952800-100997400	Weak transcription	A549	lung
2	chr6:100955800-100991200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:100957400-100992400	Weak transcription	Small Intestine	intestine
4	chr6:100960600-100990200	Weak transcription	Brain Substantia Nigra	brain
5	chr6:100960800-100989600	Weak transcription	K562	blood
6	chr6:100960800-100989800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr6:100960800-101035000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:100961000-100991200	Weak transcription	HSMMtube	muscle
9	chr6:100961000-100992000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr6:100961000-100997200	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr6:100961200-100989000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:100964000-100990800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:100964200-101020000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr6:100964800-100998400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:100965200-100989600	Weak transcription	Aorta	Aorta
16	chr6:100965200-100990200	Weak transcription	Left Ventricle	heart
17	chr6:100965200-101000800	Weak transcription	Fetal Intestine Small	intestine
18	chr6:100965200-101011400	Weak transcription	Pancreas	Pancrea
19	chr6:100965400-100989600	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr6:100965400-100989800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr6:100965400-100990400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr6:100965400-100991800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr6:100965400-101005000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr6:100965600-101033600	Weak transcription	Ovary	ovary
25	chr6:100966000-101002400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:100966200-100991000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr6:100966200-100996800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:100978200-101008200	Weak transcription	NHDF-Ad	bronchial
29	chr6:100978600-100989800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:100978600-101019400	Weak transcription	HMEC	breast
31	chr6:100979000-100989600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:100979200-100991400	Weak transcription	Liver	Liver
33	chr6:100979800-101018200	Weak transcription	Primary T cells from cord blood	blood
34	chr6:100981800-100990000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr6:100981800-101001400	Weak transcription	Brain Hippocampus Middle	brain
36	chr6:100983000-100989600	Strong transcription	Dnd41	blood
37	chr6:100984400-100989000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:100984800-100991200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:100984800-101000400	Weak transcription	HepG2	liver
40	chr6:100986400-101005600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr6:100986800-100989400	Strong transcription	Primary B cells from cord blood	blood
42	chr6:100987200-100989600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr6:100987200-100991000	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr6:100987600-100990800	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr6:100987600-100997000	Weak transcription	HSMM	muscle
46	chr6:100988000-101019000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr6:100988200-100989000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:100988200-100989200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr6:100988200-100989800	Weak transcription	Adipose Nuclei	Adipose
50	chr6:100988200-100990000	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links