Variant report

Variant	rs11921546
Chromosome Location	chr3:112064263-112064264
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1050572	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12106675	1.00[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16859476	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16859484	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2399417	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[JPT][hapmap];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2399418	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3817425	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4575866	0.83[CHB][hapmap];0.92[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4582023	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57404826	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59863561	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59981538	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60377655	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60497880	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60673403	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73856005	0.96[EUR][1000 genomes]
rs9842650	0.94[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112052600-112066400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:112052800-112076200	Weak transcription	Right Ventricle	heart
3	chr3:112053200-112066400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:112053200-112076400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr3:112054000-112065800	Weak transcription	Fetal Kidney	kidney
6	chr3:112054000-112068600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr3:112054800-112066400	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:112054800-112076800	Weak transcription	Lung	lung
9	chr3:112054800-112083000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:112055200-112068800	Weak transcription	Fetal Intestine Small	intestine
11	chr3:112055600-112080200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr3:112055800-112076400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr3:112056200-112065400	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:112056600-112064600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr3:112056600-112076400	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr3:112057800-112067000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr3:112057800-112068800	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:112058600-112067400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr3:112058800-112069800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr3:112059000-112066600	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr3:112059200-112069000	Strong transcription	H1 Cell Line	embryonic stem cell
22	chr3:112059600-112066600	Weak transcription	Brain Substantia Nigra	brain
23	chr3:112059600-112075000	Strong transcription	Fetal Thymus	thymus
24	chr3:112059800-112065600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:112061200-112083000	Weak transcription	Colonic Mucosa	Colon
26	chr3:112061400-112076000	Strong transcription	Primary hematopoietic stem cells	blood
27	chr3:112061600-112064400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
28	chr3:112061800-112067400	Strong transcription	HUES48 Cell Line	embryonic stem cell
29	chr3:112062200-112066200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
30	chr3:112062200-112066600	Strong transcription	Fetal Lung	lung
31	chr3:112062200-112067800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr3:112062400-112064400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:112062400-112069000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:112062400-112083000	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr3:112062600-112064600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr3:112062600-112076600	Strong transcription	Primary B cells from cord blood	blood
37	chr3:112062800-112074600	Strong transcription	Primary B cells from peripheral blood	blood
38	chr3:112063000-112065600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr3:112063000-112066800	Strong transcription	Brain Anterior Caudate	brain
40	chr3:112063200-112064400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr3:112063200-112064800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr3:112063200-112066200	Strong transcription	Fetal Brain Male	brain
43	chr3:112063200-112066400	Strong transcription	Brain Inferior Temporal Lobe	brain
44	chr3:112063200-112066400	Strong transcription	Fetal Muscle Leg	muscle
45	chr3:112063200-112066600	Strong transcription	Adipose Nuclei	Adipose
46	chr3:112063200-112067000	Strong transcription	H9 Cell Line	embryonic stem cell
47	chr3:112063200-112067400	Strong transcription	Aorta	Aorta
48	chr3:112063400-112064800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
49	chr3:112063400-112064800	Strong transcription	Brain Cingulate Gyrus	brain
50	chr3:112063400-112066200	Strong transcription	ES-I3 Cell Line	embryonic stem cell

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