Variant report

Variant	rs13125362
Chromosome Location	chr4:143514034-143514035
allele	A/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	chr4:143512089..143514343-chr4:143518901..143520578,2	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:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10857397	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1116690	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11723809	0.84[ASN][1000 genomes]
rs13102191	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13114452	0.84[ASN][1000 genomes]
rs13125853	0.82[ASN][1000 genomes]
rs1364921	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1364922	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1364923	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1364925	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1443191	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1473222	0.81[EUR][1000 genomes]
rs2017146	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2083781	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2165820	0.84[ASN][1000 genomes]
rs2197216	0.83[ASN][1000 genomes]
rs2217017	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2874870	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2874871	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4975311	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6831966	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6839894	0.81[AMR][1000 genomes]
rs7698691	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs979194	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs979195	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs979196	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[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:15 , 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	chr4:143503800-143514200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr4:143506400-143518000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr4:143506800-143514400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr4:143507400-143517000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr4:143507400-143520200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr4:143507600-143519200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr4:143508200-143520000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr4:143508800-143516400	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr4:143511800-143521200	Weak transcription	Primary T cells from cord blood	blood
12	chr4:143513600-143517200	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr4:143513800-143514600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
14	chr4:143514000-143514600	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
15	chr4:143514000-143515000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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