Variant report

Variant	rs13166562
Chromosome Location	chr5:178341726-178341727
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	chr5:178338284..178340822-chr5:178341370..178344365,2	K562	blood:

Variant related genes	Relation type
ENSG00000198939	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1046724	0.95[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11249600	0.95[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11740486	0.80[ASN][1000 genomes]
rs11740503	0.80[ASN][1000 genomes]
rs11744810	0.95[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11745435	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11748636	0.95[CEU][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11749871	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11952817	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs11955491	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11955549	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11956161	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11959507	0.83[EUR][1000 genomes]
rs12516516	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13171869	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13182467	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13183468	0.86[EUR][1000 genomes]
rs13189231	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13189941	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1496948	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1566105	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17652441	0.93[EUR][1000 genomes]
rs1826863	0.86[EUR][1000 genomes]
rs1845939	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2047356	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34904538	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35245718	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35974815	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35984063	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs36077478	0.84[ASN][1000 genomes]
rs6600996	0.87[EUR][1000 genomes]
rs6897952	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs732531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7445002	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7448421	0.95[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7448445	0.95[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7722159	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7722441	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][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	nsv883218	chr5:178219855-178349391	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178335600-178349000	ZNF genes & repeats	Liver	Liver
2	chr5:178335800-178342200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
3	chr5:178335800-178367000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
4	chr5:178340000-178341800	Weak transcription	Pancreas	Pancrea
5	chr5:178340200-178342600	Weak transcription	Fetal Stomach	stomach
6	chr5:178340400-178341800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr5:178340400-178341800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr5:178340400-178342800	Weak transcription	Left Ventricle	heart
9	chr5:178340400-178344800	Weak transcription	Fetal Brain Male	brain
10	chr5:178340400-178345400	Weak transcription	Placenta	Placenta
11	chr5:178340600-178341800	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr5:178340600-178343000	Weak transcription	Brain Substantia Nigra	brain
13	chr5:178340800-178341800	Weak transcription	Brain Angular Gyrus	brain
14	chr5:178340800-178341800	Weak transcription	Fetal Kidney	kidney
15	chr5:178341600-178342000	ZNF genes & repeats	Right Ventricle	heart
16	chr5:178341600-178342000	Strong transcription	Skeletal Muscle Female	skeletal muscle
17	chr5:178341600-178342200	ZNF genes & repeats	Brain Anterior Caudate	brain
18	chr5:178341600-178342200	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
19	chr5:178341600-178342800	ZNF genes & repeats	Brain Germinal Matrix	brain
20	chr5:178341600-178343400	ZNF genes & repeats	Psoas Muscle	Psoas
21	chr5:178341600-178343800	ZNF genes & repeats	Aorta	Aorta
22	chr5:178341600-178345800	ZNF genes & repeats	Fetal Lung	lung
23	chr5:178341600-178345800	ZNF genes & repeats	Ovary	ovary
24	chr5:178341600-178347000	ZNF genes & repeats	Adipose Nuclei	Adipose
25	chr5:178341600-178347200	ZNF genes & repeats	Stomach Smooth Muscle	stomach
26	chr5:178341600-178367000	ZNF genes & repeats	Fetal Brain Female	brain

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