Variant report

Variant	rs1364925
Chromosome Location	chr4:143516374-143516375
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143388165..143401257-chr4:143512284..143528837,40	MCF-7	breast:
2	chr4:143515194..143518460-chr4:143519756..143524261,5	MCF-7	breast:
3	chr4:143391752..143397700-chr4:143513549..143524281,24	MCF-7	breast:
4	chr4:143488482..143490655-chr4:143513753..143516838,3	MCF-7	breast:
5	chr4:143509941..143511857-chr4:143515159..143518167,3	MCF-7	breast:
6	chr4:143515775..143516713-chr8:125811738..125812411,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1017527	0.82[CHD][hapmap]
rs1031104	0.89[MEX][hapmap];0.81[ASN][1000 genomes]
rs10857397	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10857399	0.81[JPT][hapmap]
rs1116690	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11723809	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11942731	0.81[YRI][hapmap]
rs11943397	0.93[ASW][hapmap];0.83[CHB][hapmap];0.88[CHD][hapmap];0.87[JPT][hapmap];0.82[LWK][hapmap];0.95[MEX][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11944455	0.91[CHB][hapmap];0.85[YRI][hapmap];0.86[ASN][1000 genomes]
rs12500698	0.81[ASN][1000 genomes]
rs13102191	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13109603	0.87[ASN][1000 genomes]
rs13109664	0.87[ASN][1000 genomes]
rs13114452	0.96[ASN][1000 genomes]
rs13119090	0.87[ASN][1000 genomes]
rs13125362	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13125853	0.94[ASN][1000 genomes]
rs13133181	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13149611	0.83[CHD][hapmap]
rs1364921	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1364922	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1364923	0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1373041	0.81[ASN][1000 genomes]
rs1443190	0.83[CHD][hapmap]
rs1443191	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1473222	0.91[CEU][hapmap];0.92[CHB][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1899565	0.83[CHB][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs2017146	0.87[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2083781	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2120158	0.93[ASW][hapmap];0.83[CHB][hapmap];0.83[CHD][hapmap];0.87[JPT][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2165820	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2197216	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2217017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2874870	0.93[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.94[MEX][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2874871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4975311	0.91[CEU][hapmap];0.92[CHB][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61371792	0.81[ASN][1000 genomes]
rs6537123	0.86[ASN][1000 genomes]
rs6830053	0.81[ASN][1000 genomes]
rs6830886	0.81[ASN][1000 genomes]
rs6831966	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6839894	0.90[CHB][hapmap];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7434705	0.87[ASN][1000 genomes]
rs7441478	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7675305	0.83[CHD][hapmap]
rs7680076	0.87[ASN][1000 genomes]
rs7680631	0.81[ASN][1000 genomes]
rs7682731	0.83[CHD][hapmap]
rs7688435	0.82[CHD][hapmap]
rs7695514	0.82[CHB][hapmap];0.87[ASN][1000 genomes]
rs7698691	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs979194	0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs979195	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs979196	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461660	chr4:143437219-143538179	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv595605	chr4:143437219-143538179	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	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	chr4:143489800-143519400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:143490800-143519200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr4:143506400-143518000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr4:143507400-143517000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr4:143507400-143520200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr4:143507600-143519200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr4:143508200-143520000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr4:143508800-143516400	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr4:143511800-143521200	Weak transcription	Primary T cells from cord blood	blood
10	chr4:143513600-143517200	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr4:143514600-143519800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr4:143514800-143518000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr4:143514800-143519800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr4:143515000-143519400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr4:143515200-143518000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr4:143515600-143518400	Enhancers	Liver	Liver
17	chr4:143515800-143516800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr4:143516000-143523800	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links