Variant report

Variant	rs1845939
Chromosome Location	chr5:178337533-178337534
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CHD1	chr5:178337428-178337546	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:178322017..178324460-chr5:178337015..178339677,2	MCF-7	breast:

Variant related genes	Relation type
ZFP2	TF binding region
ENSG00000198939	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10036425	0.95[ASN][1000 genomes]
rs10043786	0.95[ASN][1000 genomes]
rs10070619	1.00[JPT][hapmap]
rs1046724	0.95[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11249600	0.95[CEU][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11744810	0.95[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11745435	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11748636	0.95[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11749871	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11955491	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11955549	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11956161	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11959507	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12516516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13166562	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13171869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13172044	1.00[JPT][hapmap]
rs13182467	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13183468	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13189231	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13189941	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1496948	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1566105	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17652441	0.92[EUR][1000 genomes]
rs1826863	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2047356	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34904538	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35123052	0.89[ASN][1000 genomes]
rs35245718	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35869073	0.95[ASN][1000 genomes]
rs35974815	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35984063	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55841430	0.95[ASN][1000 genomes]
rs6600996	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6894647	0.81[AMR][1000 genomes]
rs6897952	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs732531	1.00[CEU][hapmap]
rs7445002	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7448421	0.95[CEU][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7448445	0.95[CEU][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7722159	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7722441	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7735200	1.00[JPT][hapmap]
rs953741	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
2	esv3470830	chr5:178334452-178339256	Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	esv3470831	chr5:178334452-178339256	Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178335600-178340600	ZNF genes & repeats	Brain Substantia Nigra	brain
2	chr5:178335600-178349000	ZNF genes & repeats	Liver	Liver
3	chr5:178335800-178337800	ZNF genes & repeats	Gastric	stomach
4	chr5:178335800-178337800	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
5	chr5:178335800-178342200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
6	chr5:178335800-178367000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
7	chr5:178336000-178337800	ZNF genes & repeats	Brain Hippocampus Middle	brain
8	chr5:178336000-178338000	ZNF genes & repeats	Ovary	ovary
9	chr5:178336000-178340400	ZNF genes & repeats	Adipose Nuclei	Adipose
10	chr5:178336200-178337800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
11	chr5:178336200-178337800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
12	chr5:178336200-178337800	ZNF genes & repeats	Fetal Lung	lung
13	chr5:178336200-178338000	ZNF genes & repeats	Brain Cingulate Gyrus	brain
14	chr5:178336200-178338000	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
15	chr5:178336400-178337600	ZNF genes & repeats	Stomach Smooth Muscle	stomach
16	chr5:178336400-178337800	ZNF genes & repeats	Aorta	Aorta
17	chr5:178336400-178337800	ZNF genes & repeats	Spleen	Spleen
18	chr5:178336600-178337800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
19	chr5:178336800-178337800	ZNF genes & repeats	Fetal Stomach	stomach
20	chr5:178336800-178338000	ZNF genes & repeats	Esophagus	oesophagus
21	chr5:178336800-178340000	Weak transcription	Fetal Kidney	kidney
22	chr5:178337000-178338000	ZNF genes & repeats	Brain Germinal Matrix	brain
23	chr5:178337000-178340600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr5:178337400-178337800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr5:178337400-178337800	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle

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