Variant report

Variant	rs10457415
Chromosome Location	chr6:121632734-121632735
allele	C/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:14)

rs_ID	r²[population]
rs10499106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10499109	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11154001	0.80[EUR][1000 genomes]
rs11154002	0.81[EUR][1000 genomes]
rs11154005	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11154011	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11154012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759795	0.86[EUR][1000 genomes]
rs12191616	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12198421	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12212646	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17644324	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7742017	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7745023	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023384	chr6:121235867-121683448	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv530527	chr6:121298528-121789855	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv830789	chr6:121581450-121732320	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1017944	chr6:121600538-121644362	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:121586400-121655000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:121588400-121655200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:121588800-121642000	Weak transcription	Left Ventricle	heart
4	chr6:121589000-121632800	Weak transcription	Fetal Lung	lung
5	chr6:121589000-121635200	Weak transcription	Duodenum Mucosa	Duodenum
6	chr6:121589000-121637600	Weak transcription	Ovary	ovary
7	chr6:121589000-121654200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:121589200-121655000	Weak transcription	Fetal Stomach	stomach
9	chr6:121594200-121654800	Weak transcription	Primary hematopoietic stem cells	blood
10	chr6:121601600-121635200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:121602600-121637800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:121604000-121645200	Weak transcription	Fetal Kidney	kidney
13	chr6:121604400-121642000	Weak transcription	Primary B cells from cord blood	blood
14	chr6:121604800-121653000	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr6:121606600-121655000	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:121611000-121640400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr6:121611200-121655000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:121612600-121637600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:121613200-121637600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:121613400-121640400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr6:121614200-121633200	Weak transcription	Dnd41	blood
22	chr6:121614200-121640400	Weak transcription	Brain Hippocampus Middle	brain
23	chr6:121615600-121655000	Weak transcription	Pancreas	Pancrea
24	chr6:121616200-121655000	Weak transcription	Fetal Muscle Leg	muscle
25	chr6:121617200-121651600	Weak transcription	GM12878-XiMat	blood
26	chr6:121619000-121640400	Weak transcription	Brain Anterior Caudate	brain
27	chr6:121620200-121640400	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr6:121622200-121654600	Weak transcription	Fetal Thymus	thymus
29	chr6:121622600-121655000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr6:121622800-121640400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:121622800-121654800	Weak transcription	Brain Germinal Matrix	brain
32	chr6:121624200-121644800	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr6:121628200-121640400	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:121629800-121633000	Weak transcription	Primary T cells from cord blood	blood
35	chr6:121629800-121648400	Weak transcription	Brain Substantia Nigra	brain
36	chr6:121630600-121651600	Weak transcription	K562	blood
37	chr6:121630800-121636400	Weak transcription	Thymus	Thymus
38	chr6:121631800-121644800	Weak transcription	HSMMtube	muscle
39	chr6:121632000-121634200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr6:121632000-121640400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:121632000-121640400	Weak transcription	NH-A	brain
42	chr6:121632000-121640400	Weak transcription	Osteobl	bone
43	chr6:121632000-121654200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:121632200-121635200	Weak transcription	Fetal Intestine Small	intestine
45	chr6:121632200-121640400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr6:121632200-121641600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr6:121632200-121653800	Weak transcription	Primary T helper cells fromperipheralblood	blood
48	chr6:121632200-121654200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr6:121632200-121655000	Weak transcription	HSMM	muscle
50	chr6:121632400-121635200	Weak transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links