Variant report

Variant	rs41528346
Chromosome Location	chr10:97098143-97098144
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97089456..97092597-chr10:97097481..97100354,3	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10509694	0.88[JPT][hapmap]
rs10882589	0.91[CHB][hapmap]
rs11188273	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.87[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11188274	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11188275	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11188277	1.00[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap];0.91[LWK][hapmap];0.88[MEX][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11188283	0.84[JPT][hapmap]
rs11188284	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188301	0.91[CHB][hapmap]
rs11188312	0.91[CHB][hapmap]
rs11813902	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12217735	0.91[CHB][hapmap]
rs1410058	0.91[CHB][hapmap]
rs1410599	0.84[CHD][hapmap];0.94[JPT][hapmap]
rs1410605	0.89[JPT][hapmap]
rs1556054	1.00[CEU][hapmap];0.87[JPT][hapmap]
rs17110702	0.91[CHB][hapmap]
rs2078276	0.81[CHD][hapmap]
rs3740509	0.91[CHB][hapmap]
rs3814156	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4917685	0.84[JPT][hapmap]
rs4918917	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4918926	0.82[CHB][hapmap]
rs4918927	0.91[CHB][hapmap]
rs726175	0.89[JPT][hapmap]
rs7919009	0.84[JPT][hapmap]
rs874450	0.91[CHB][hapmap]

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	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97070400-97139600	Weak transcription	Fetal Brain Male	brain
2	chr10:97071200-97098800	Weak transcription	Brain Substantia Nigra	brain
3	chr10:97075200-97098800	Weak transcription	Ovary	ovary
4	chr10:97079400-97101400	Weak transcription	Fetal Kidney	kidney
5	chr10:97079400-97106400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr10:97080000-97099000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr10:97080000-97109600	Weak transcription	Fetal Lung	lung
8	chr10:97080400-97106200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr10:97087800-97115400	Weak transcription	Colonic Mucosa	Colon
10	chr10:97088000-97110600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr10:97091000-97102000	Strong transcription	Fetal Brain Female	brain
12	chr10:97091600-97099800	Strong transcription	Cortex derived primary cultured neurospheres	brain
13	chr10:97091800-97101400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr10:97092600-97098200	Strong transcription	Fetal Intestine Large	intestine
15	chr10:97092600-97100200	Strong transcription	Liver	Liver
16	chr10:97093200-97099200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr10:97093200-97103600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr10:97093200-97106400	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr10:97093400-97103600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr10:97093400-97103600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr10:97093800-97098400	Genic enhancers	Stomach Smooth Muscle	stomach
22	chr10:97094400-97106600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr10:97094600-97099400	Genic enhancers	HepG2	liver
24	chr10:97094600-97101200	Strong transcription	Brain Germinal Matrix	brain
25	chr10:97094600-97102600	Strong transcription	HSMMtube	muscle
26	chr10:97094600-97118000	Weak transcription	HSMM	muscle
27	chr10:97094800-97099400	Strong transcription	Fetal Stomach	stomach
28	chr10:97095000-97101800	Strong transcription	Fetal Muscle Leg	muscle
29	chr10:97095000-97110600	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr10:97095000-97115200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr10:97095200-97098800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr10:97095200-97098800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr10:97095200-97099200	Strong transcription	Fetal Intestine Small	intestine
34	chr10:97095200-97102200	Strong transcription	Placenta	Placenta
35	chr10:97095400-97098800	Weak transcription	HMEC	breast
36	chr10:97095400-97102600	Strong transcription	Brain Anterior Caudate	brain
37	chr10:97095600-97101000	Weak transcription	NHLF	lung
38	chr10:97095800-97099200	Strong transcription	HUES6 Cell Line	embryonic stem cell
39	chr10:97095800-97099200	Genic enhancers	Right Ventricle	heart
40	chr10:97095800-97099400	Strong transcription	Brain Cingulate Gyrus	brain
41	chr10:97095800-97099400	Strong transcription	Pancreas	Pancrea
42	chr10:97095800-97099600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr10:97096200-97099000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr10:97096200-97101200	Strong transcription	Fetal Muscle Trunk	muscle
45	chr10:97096400-97098800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr10:97096400-97099200	Strong transcription	Brain Inferior Temporal Lobe	brain
47	chr10:97096400-97101600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr10:97096400-97102000	Strong transcription	Duodenum Smooth Muscle	Duodenum
49	chr10:97096400-97108400	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr10:97096400-97110600	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links