Variant report

Variant	rs28665985
Chromosome Location	chr4:143747916-143747917
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:143562963..143564515-chr4:143746761..143748551,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10023146	0.93[ASN][1000 genomes]
rs10029622	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10034956	0.93[ASN][1000 genomes]
rs10049507	0.93[ASN][1000 genomes]
rs11100756	0.93[ASN][1000 genomes]
rs11725795	0.93[ASN][1000 genomes]
rs11936486	0.88[AFR][1000 genomes]
rs13103261	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13105531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13108947	0.80[ASN][1000 genomes]
rs13112871	0.93[ASN][1000 genomes]
rs13116732	0.93[ASN][1000 genomes]
rs13132001	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13133396	0.93[ASN][1000 genomes]
rs13135210	0.80[ASN][1000 genomes]
rs13140998	0.80[ASN][1000 genomes]
rs1373664	0.93[ASN][1000 genomes]
rs1441412	1.00[ASN][1000 genomes]
rs1441416	0.93[ASN][1000 genomes]
rs17016816	0.86[AFR][1000 genomes]
rs17016828	0.84[AFR][1000 genomes]
rs1899564	0.93[ASN][1000 genomes]
rs2322814	0.93[ASN][1000 genomes]
rs28367408	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28410519	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28421948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28453834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28462985	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28508323	0.93[ASN][1000 genomes]
rs28533753	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28608029	0.93[ASN][1000 genomes]
rs28667040	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28685292	0.93[ASN][1000 genomes]
rs28715653	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34032529	0.93[ASN][1000 genomes]
rs34241470	0.93[ASN][1000 genomes]
rs34412123	0.93[ASN][1000 genomes]
rs34804364	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35053070	0.80[ASN][1000 genomes]
rs35416729	0.93[ASN][1000 genomes]
rs35838997	0.93[ASN][1000 genomes]
rs35918867	0.93[ASN][1000 genomes]
rs36042265	0.93[ASN][1000 genomes]
rs62331921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62331922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62331933	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62331934	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72935995	0.84[AFR][1000 genomes]
rs7662067	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7683763	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs986081	0.93[ASN][1000 genomes]
rs9994268	0.91[EUR][1000 genomes];1.00[ASN][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	nsv880174	chr4:143639498-143848024	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143732600-143749600	Weak transcription	Right Ventricle	heart
2	chr4:143740200-143765800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:143741200-143751800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr4:143744000-143753200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr4:143745400-143748000	Weak transcription	Left Ventricle	heart
6	chr4:143746000-143748600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:143746600-143749000	Enhancers	Fetal Heart	heart
8	chr4:143747200-143751600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr4:143747800-143748200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr4:143747800-143748200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr4:143747800-143748400	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr4:143747800-143748400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links