Variant report

Variant	rs10432493
Chromosome Location	chr2:153315366-153315367
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:153313880..153316291-chr2:153320825..153322769,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10166703	0.82[CEU][hapmap]
rs10173899	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10179418	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10180542	0.88[ASN][1000 genomes]
rs10194603	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10208776	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12616906	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12693378	0.83[CEU][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs13011152	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13386403	0.81[JPT][hapmap]
rs13390698	0.93[JPT][hapmap]
rs13424038	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13427076	0.94[JPT][hapmap]
rs13427990	0.84[ASN][1000 genomes]
rs16831169	0.84[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16831174	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2078444	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2346204	0.82[CEU][hapmap]
rs2346205	0.81[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2346209	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2881339	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4143274	0.89[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4146259	0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs4664587	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4664589	0.85[ASN][1000 genomes]
rs4664590	0.85[ASN][1000 genomes]
rs58121347	0.91[ASN][1000 genomes]
rs59965317	0.82[ASN][1000 genomes]
rs6434059	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6434060	0.84[ASN][1000 genomes]
rs6434061	0.86[ASN][1000 genomes]
rs6434062	0.84[ASN][1000 genomes]
rs6713348	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6725661	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6737699	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs6747765	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs6748954	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs73002264	0.81[ASN][1000 genomes]
rs73968029	0.89[ASN][1000 genomes]
rs7559217	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7582984	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7586195	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7587794	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7590207	0.86[ASN][1000 genomes]
rs7592283	0.87[ASN][1000 genomes]
rs7593411	0.82[ASN][1000 genomes]
rs7594969	0.82[ASN][1000 genomes]
rs7606592	0.82[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[ASN][1000 genomes]
rs9288103	0.82[CEU][hapmap]

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	nsv834419	chr2:153179420-153381476	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv875291	chr2:153251742-153339823	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1013777	chr2:153273637-153538546	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	esv2754362	chr2:153297577-153366129	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv875292	chr2:153308471-153357383	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153301800-153321000	Weak transcription	Right Atrium	heart
2	chr2:153302400-153321600	Weak transcription	Left Ventricle	heart
3	chr2:153303400-153322600	Weak transcription	NHLF	lung
4	chr2:153304400-153321800	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr2:153305600-153321800	Weak transcription	Fetal Intestine Small	intestine
6	chr2:153306200-153319800	Weak transcription	Psoas Muscle	Psoas
7	chr2:153306200-153320200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr2:153309400-153321600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr2:153309400-153323600	Enhancers	Brain Angular Gyrus	brain
10	chr2:153310400-153317000	Enhancers	Brain Substantia Nigra	brain
11	chr2:153310400-153318400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr2:153311600-153318600	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr2:153311800-153321600	Weak transcription	Lung	lung
14	chr2:153312000-153315600	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr2:153312000-153315600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr2:153312000-153317000	Weak transcription	Ovary	ovary
17	chr2:153312000-153318800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr2:153312000-153320400	Weak transcription	Fetal Brain Male	brain
19	chr2:153312000-153321400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr2:153312800-153315600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr2:153313000-153320800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr2:153313000-153321000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr2:153313000-153321600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr2:153313000-153322000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr2:153313200-153316800	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr2:153313200-153318400	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr2:153313200-153321200	Weak transcription	A549	lung
28	chr2:153313200-153321600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr2:153313400-153321200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr2:153313400-153321400	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr2:153313800-153319000	Enhancers	Brain Cingulate Gyrus	brain
32	chr2:153313800-153321000	Weak transcription	NHEK	skin
33	chr2:153314400-153316800	Enhancers	Brain Hippocampus Middle	brain
34	chr2:153314800-153315400	Enhancers	Aorta	Aorta
35	chr2:153314800-153317200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr2:153314800-153321000	Enhancers	Brain Anterior Caudate	brain
37	chr2:153315000-153315400	Enhancers	Right Ventricle	heart
38	chr2:153315000-153316000	Enhancers	HUES64 Cell Line	embryonic stem cell
39	chr2:153315000-153318400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr2:153315000-153318400	Weak transcription	HepG2	liver
41	chr2:153315200-153321200	Weak transcription	Placenta	Placenta

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