Variant report

Variant	rs13125832
Chromosome Location	chr4:166333717-166333718
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	chr4:166332549..166335488-chr4:166340232..166341831,2	K562	blood:
2	chr20:52209872..52212369-chr4:166332540..166334545,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171940	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10004552	0.84[AMR][1000 genomes]
rs10008344	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10011067	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10011232	0.81[EUR][1000 genomes]
rs10011401	0.93[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10011416	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10014827	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]
rs10018971	0.89[CEU][hapmap];0.83[JPT][hapmap]
rs10019052	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs10027722	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10029982	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10030374	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10033089	0.80[EUR][1000 genomes]
rs10471062	0.81[EUR][1000 genomes]
rs10517843	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10517844	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[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]
rs10517845	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10517846	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs10517848	0.84[JPT][hapmap]
rs10517849	0.84[JPT][hapmap]
rs11724900	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs11727980	0.84[JPT][hapmap]
rs11728234	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs11728337	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs11731695	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs11731822	0.85[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11732161	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs11732478	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11732583	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11732618	1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11732933	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11733216	0.83[CEU][hapmap];0.84[JPT][hapmap]
rs11735607	0.85[CEU][hapmap];0.83[JPT][hapmap]
rs11736871	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11737162	0.81[EUR][1000 genomes]
rs13102614	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs13103210	0.82[CEU][hapmap]
rs13103665	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs13103782	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]
rs13107292	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs13110546	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs13110900	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs13111798	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13125242	0.83[CEU][hapmap];0.87[JPT][hapmap];0.81[EUR][1000 genomes]
rs13126038	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]
rs13126229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13131303	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs13131657	0.84[CEU][hapmap];0.87[JPT][hapmap]
rs13134608	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13141616	0.80[EUR][1000 genomes]
rs13147995	0.82[JPT][hapmap]
rs13149691	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13149935	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13151923	0.81[EUR][1000 genomes]
rs1370680	0.84[JPT][hapmap]
rs17046430	0.81[EUR][1000 genomes]
rs17624977	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17686882	0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17687178	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs1866221	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1866222	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1866223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1866224	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1866225	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1946816	0.84[CEU][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs1946817	0.81[EUR][1000 genomes]
rs1946818	0.81[EUR][1000 genomes]
rs2033767	0.85[CEU][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs28409044	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28429925	0.81[EUR][1000 genomes]
rs28450545	0.81[EUR][1000 genomes]
rs28490347	0.81[EUR][1000 genomes]
rs28510895	0.81[EUR][1000 genomes]
rs28516800	0.81[EUR][1000 genomes]
rs28547315	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28573326	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28638079	0.80[EUR][1000 genomes]
rs2874700	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3943704	0.81[EUR][1000 genomes]
rs4266249	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4293756	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4299540	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4349560	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4408916	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4441715	0.84[JPT][hapmap]
rs4461476	0.84[JPT][hapmap]
rs4481204	0.84[JPT][hapmap]
rs66746153	0.84[EUR][1000 genomes]
rs67650739	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6828394	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6832392	0.85[CEU][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs6832627	0.85[CEU][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs6833220	0.80[EUR][1000 genomes]
rs72703616	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs729699	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73005556	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9308105	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9308106	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9308107	0.81[EUR][1000 genomes]
rs9308108	0.81[EUR][1000 genomes]
rs9762244	0.80[EUR][1000 genomes]
rs9992011	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]
rs9993860	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9996980	0.89[AMR][1000 genomes];0.87[EUR][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	nsv822819	chr4:166333413-166333962	Weak transcription Enhancers Strong transcription	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166319600-166361800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr4:166320000-166339000	Weak transcription	Brain Hippocampus Middle	brain
3	chr4:166320000-166339200	Weak transcription	Brain Substantia Nigra	brain
4	chr4:166325800-166334600	Weak transcription	Fetal Brain Male	brain
5	chr4:166326000-166339000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr4:166326400-166338800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr4:166326600-166337200	Weak transcription	Aorta	Aorta
8	chr4:166326800-166364400	Weak transcription	Brain Germinal Matrix	brain
9	chr4:166327200-166334800	Weak transcription	Fetal Brain Female	brain
10	chr4:166327400-166339200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:166330600-166333800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr4:166330800-166337200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr4:166332000-166335000	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr4:166332200-166335800	Weak transcription	Brain Anterior Caudate	brain
15	chr4:166332800-166334000	Weak transcription	HepG2	liver
16	chr4:166332800-166339200	Weak transcription	Brain Angular Gyrus	brain
17	chr4:166333000-166334400	Weak transcription	Brain Cingulate Gyrus	brain
18	chr4:166333200-166335200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links