Variant report

Variant	rs16831549
Chromosome Location	chr3:160588486-160588487
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160587600..160589495-chr3:161088974..161091016,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10513557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10513563	1.00[CEU][hapmap]
rs12486103	1.00[CHB][hapmap]
rs12486691	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12488403	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12492000	0.84[EUR][1000 genomes]
rs12492376	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12630250	1.00[CEU][hapmap]
rs1374792	1.00[CEU][hapmap]
rs1447612	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1447613	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831546	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16831552	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831555	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831581	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16831611	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16831760	1.00[CEU][hapmap]
rs16831771	1.00[CEU][hapmap]
rs16831799	0.82[CHB][hapmap]
rs16831802	1.00[CEU][hapmap]
rs17405707	1.00[CEU][hapmap]
rs3925722	0.82[CHB][hapmap]
rs58693796	0.91[ASN][1000 genomes]
rs59252183	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59647128	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6441341	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6441350	0.82[CHB][hapmap]
rs6787599	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6790705	1.00[CHB][hapmap]
rs6796168	0.82[CHB][hapmap]
rs6800309	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6806729	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs6807796	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7627500	0.82[CHB][hapmap]
rs935499	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv32963	chr3:160555238-160603116	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 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	chr3:160587400-160593000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:160587600-160588800	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr3:160587800-160588600	Enhancers	Brain Anterior Caudate	brain
4	chr3:160587800-160588600	Active TSS	Right Ventricle	heart
5	chr3:160587800-160588600	Active TSS	Skeletal Muscle Male	skeletal muscle
6	chr3:160587800-160589000	Enhancers	Brain Germinal Matrix	brain
7	chr3:160587800-160589000	Enhancers	Colon Smooth Muscle	Colon
8	chr3:160588000-160588600	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr3:160588000-160588600	Active TSS	Psoas Muscle	Psoas
10	chr3:160588000-160588600	Active TSS	Right Atrium	heart
11	chr3:160588200-160594000	Weak transcription	Fetal Heart	heart
12	chr3:160588200-160594400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:160588400-160588600	Active TSS	Skeletal Muscle Female	skeletal muscle
14	chr3:160588400-160588600	Flanking Active TSS	HSMMtube	muscle
15	chr3:160588400-160592000	Weak transcription	Fetal Muscle Leg	muscle
16	chr3:160588400-160594000	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr3:160588400-160594000	Weak transcription	Left Ventricle	heart
18	chr3:160588400-160594200	Weak transcription	Stomach Smooth Muscle	stomach

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