Variant report

Variant	rs17016068
Chromosome Location	chr1:210559048-210559049
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:210557280..210560870-chr1:210565323..210568970,3	MCF-7	breast:
2	chr1:210557629..210560572-chr1:210562217..210564495,2	MCF-7	breast:
3	chr1:210550122..210554367-chr1:210555411..210560476,4	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1033492	0.86[EUR][1000 genomes]
rs1076708	0.92[CHD][hapmap]
rs11119483	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12070523	0.89[CEU][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs12082200	0.94[ASN][1000 genomes]
rs12085633	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs12143445	0.83[ASN][1000 genomes]
rs12411194	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17016036	0.89[CEU][hapmap];0.85[CHB][hapmap];0.88[GIH][hapmap];0.92[JPT][hapmap];0.84[TSI][hapmap];0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2073038	0.92[CHD][hapmap];0.81[AMR][1000 genomes]
rs4844521	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4844523	0.83[AMR][1000 genomes]
rs4845007	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4845008	0.83[ASN][1000 genomes]
rs4845009	0.83[ASN][1000 genomes]
rs4845012	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55704833	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs56381238	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72745442	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72745456	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7551407	0.92[CHD][hapmap]

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	nsv8769	chr1:210403509-210564588	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	126 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210529600-210586000	Weak transcription	Pancreas	Pancrea
2	chr1:210538400-210565600	Weak transcription	Esophagus	oesophagus
3	chr1:210543200-210565200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr1:210546600-210566200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:210548600-210566400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr1:210551200-210566600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:210551400-210586000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr1:210557000-210559400	Enhancers	HepG2	liver
9	chr1:210557400-210559200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr1:210557600-210559200	Enhancers	HSMM	muscle
11	chr1:210557600-210559400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr1:210557600-210559400	Enhancers	Muscle Satellite Cultured Cells	--
13	chr1:210557600-210559400	Enhancers	Osteobl	bone
14	chr1:210557800-210559400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr1:210558000-210559400	Enhancers	Liver	Liver
16	chr1:210558000-210560000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr1:210558400-210560000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr1:210558800-210559200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr1:210558800-210559200	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr1:210558800-210559200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr1:210558800-210559200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr1:210558800-210559200	Enhancers	Stomach Mucosa	stomach
23	chr1:210559000-210584400	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links