Variant report

Variant	rs41279898
Chromosome Location	chr10:25402691-25402692
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:25402201..25402709-chr10:25515764..25516442,2	K562	blood:
2	chr10:25402163..25402736-chr10:25722736..25723649,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12249452	0.87[ASN][1000 genomes]
rs12252765	1.00[ASN][1000 genomes]
rs12258541	1.00[ASN][1000 genomes]
rs16925368	1.00[ASN][1000 genomes]
rs17532593	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17616467	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1926051	1.00[ASN][1000 genomes]
rs2148208	1.00[ASN][1000 genomes]
rs34675238	1.00[ASN][1000 genomes]
rs56176936	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56281542	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57545487	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59098941	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60598875	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61084611	1.00[AMR][1000 genomes]
rs72782211	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72782214	0.93[AMR][1000 genomes]
rs72782215	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782216	0.96[EUR][1000 genomes]
rs72782217	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782219	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782220	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782221	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782222	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782223	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782224	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782225	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782226	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782227	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72782228	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782229	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782230	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72792045	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792046	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72792047	1.00[AMR][1000 genomes]
rs72792048	1.00[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	nsv894970	chr10:25385858-25522280	Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25392400-25414200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:25395000-25405000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:25397400-25404800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr10:25398200-25404600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr10:25400400-25403400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr10:25401600-25402800	Enhancers	Brain Angular Gyrus	brain
7	chr10:25401800-25403200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:25401800-25403400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr10:25401800-25403400	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr10:25402000-25402800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:25402000-25403200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:25402000-25403200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr10:25402000-25403200	Enhancers	Adipose Nuclei	Adipose
14	chr10:25402000-25403200	Enhancers	A549	lung
15	chr10:25402000-25403400	Enhancers	Stomach Mucosa	stomach
16	chr10:25402000-25403400	Enhancers	HMEC	breast
17	chr10:25402200-25403200	Enhancers	HepG2	liver
18	chr10:25402200-25403600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr10:25402400-25402800	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr10:25402400-25402800	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr10:25402400-25402800	Enhancers	Colonic Mucosa	Colon
22	chr10:25402400-25403000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr10:25402400-25403000	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr10:25402400-25403200	Flanking Active TSS	Brain Anterior Caudate	brain
25	chr10:25402600-25402800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr10:25402600-25402800	Active TSS	Cortex derived primary cultured neurospheres	brain
27	chr10:25402600-25402800	Flanking Active TSS	Brain Cingulate Gyrus	brain
28	chr10:25402600-25403000	Enhancers	Brain Germinal Matrix	brain
29	chr10:25402600-25403000	Flanking Active TSS	Brain Substantia Nigra	brain
30	chr10:25402600-25403000	Enhancers	Fetal Muscle Trunk	muscle
31	chr10:25402600-25403000	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr10:25402600-25403200	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr10:25402600-25403200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr10:25402600-25403200	Enhancers	Brain Hippocampus Middle	brain
35	chr10:25402600-25403200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr10:25402600-25403400	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr10:25402600-25403400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr10:25402600-25403400	Enhancers	Brain Inferior Temporal Lobe	brain
39	chr10:25402600-25403600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr10:25402600-25404600	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr10:25402600-25404600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr10:25402600-25409600	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links