Variant report

Variant	rs6770488
Chromosome Location	chr3:160646417-160646418
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	chr3:160646068..160648329-chr3:160652123..160654402,3	K562	blood:
2	chr3:160471733..160474118-chr3:160646162..160647885,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163590	Chromatin interaction
ENSG00000260572	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10513558	0.86[JPT][hapmap]
rs11709802	0.93[JPT][hapmap]
rs12485723	0.89[EUR][1000 genomes]
rs12494673	0.86[JPT][hapmap]
rs12498008	0.80[JPT][hapmap]
rs12634368	0.82[AMR][1000 genomes]
rs12696110	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1348977	0.93[JPT][hapmap]
rs1374795	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1447608	0.86[JPT][hapmap]
rs1447617	0.93[JPT][hapmap]
rs1447624	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes]
rs1599382	0.80[JPT][hapmap]
rs16831758	0.80[JPT][hapmap]
rs1839014	0.86[EUR][1000 genomes]
rs1868104	0.93[JPT][hapmap]
rs1868106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1971240	0.80[JPT][hapmap]
rs2028988	0.93[JPT][hapmap]
rs2121721	0.85[JPT][hapmap]
rs4679667	1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6441334	0.93[JPT][hapmap]
rs6441335	0.89[EUR][1000 genomes]
rs6441336	0.93[JPT][hapmap]
rs6776120	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6785844	0.80[JPT][hapmap]
rs6789195	0.93[JPT][hapmap]
rs6796612	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6797498	0.93[JPT][hapmap]
rs6799391	0.93[JPT][hapmap]
rs6800092	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6808386	0.80[JPT][hapmap]
rs7610732	0.93[JPT][hapmap]
rs7613316	0.80[JPT][hapmap]
rs7616249	0.80[JPT][hapmap]
rs7629374	0.89[EUR][1000 genomes]
rs7635796	0.80[JPT][hapmap]
rs7640874	0.80[JPT][hapmap]
rs7644586	0.80[JPT][hapmap]
rs778647	0.80[JPT][hapmap]
rs778652	0.80[JPT][hapmap]
rs778655	0.86[JPT][hapmap]
rs898676	0.80[JPT][hapmap]
rs9814174	0.80[JPT][hapmap]
rs9857743	0.80[JPT][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	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

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160635400-160649200	Weak transcription	Fetal Brain Female	brain
2	chr3:160638200-160647200	Weak transcription	Right Ventricle	heart
3	chr3:160642400-160647200	Weak transcription	Adipose Nuclei	Adipose
4	chr3:160644000-160647800	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr3:160644400-160647200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:160644400-160647200	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:160644600-160647200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr3:160644600-160647200	Weak transcription	Right Atrium	heart
9	chr3:160644600-160647400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr3:160644800-160647200	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:160644800-160654400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr3:160645000-160648400	Weak transcription	Fetal Brain Male	brain
13	chr3:160645400-160647200	Weak transcription	Fetal Heart	heart
14	chr3:160645800-160646600	Enhancers	Skeletal Muscle Male	skeletal muscle
15	chr3:160646000-160648600	Enhancers	Left Ventricle	heart
16	chr3:160646000-160648600	Enhancers	Psoas Muscle	Psoas
17	chr3:160646200-160646600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr3:160646400-160646600	Enhancers	Pancreatic Islets	Pancreatic Islet

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