Variant report

Variant	rs57625069
Chromosome Location	chr3:23438574-23438575
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	chr3:23436579..23438931-chr3:23441202..23443899,2	K562	blood:
2	chr3:23436371..23438292-chr3:23438375..23440407,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10428163	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13094957	0.94[ASN][1000 genomes]
rs1496653	0.94[ASN][1000 genomes]
rs17013266	0.87[ASN][1000 genomes]
rs1845899	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1845900	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2017065	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2173058	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2359765	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2359766	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35352848	0.94[ASN][1000 genomes]
rs35901544	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4327332	0.81[ASN][1000 genomes]
rs4340647	0.92[EUR][1000 genomes]
rs56979234	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57131555	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57192920	0.87[ASN][1000 genomes]
rs59687869	0.83[ASN][1000 genomes]
rs6764347	0.91[EUR][1000 genomes]
rs6769167	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6788900	0.82[ASN][1000 genomes]
rs6808488	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73821808	0.87[ASN][1000 genomes]
rs73821809	0.87[ASN][1000 genomes]
rs73823472	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7612463	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7612812	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7613185	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7627380	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7627525	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7628372	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7639266	0.88[EUR][1000 genomes]
rs7641437	0.81[ASN][1000 genomes]
rs9883870	0.90[EUR][1000 genomes]

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	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1007373	chr3:23367952-23710331	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv876624	chr3:23385877-23483536	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv876625	chr3:23390301-23509597	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1012236	chr3:23408427-23469063	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1010032	chr3:23408985-23469063	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23427000-23445000	Weak transcription	Right Ventricle	heart
2	chr3:23429800-23445400	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr3:23431400-23447800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:23432200-23452600	Weak transcription	Aorta	Aorta
5	chr3:23433800-23459600	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr3:23434400-23440800	Weak transcription	Right Atrium	heart
7	chr3:23434400-23444000	Weak transcription	Primary B cells from cord blood	blood
8	chr3:23435000-23448200	Weak transcription	Psoas Muscle	Psoas
9	chr3:23435800-23440000	Weak transcription	Brain Substantia Nigra	brain
10	chr3:23438000-23438600	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr3:23438000-23438800	Enhancers	HUVEC	blood vessel
12	chr3:23438000-23438800	Enhancers	NHEK	skin
13	chr3:23438000-23439000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:23438000-23439000	Enhancers	HMEC	breast
15	chr3:23438200-23438800	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr3:23438200-23438800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:23438400-23438600	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links