Variant report

Variant	rs35973843
Chromosome Location	chr5:179466502-179466503
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:179466416..179468194-chr5:179492310..179494462,2	MCF-7	breast:
2	chr5:179466250..179468313-chr5:179480534..179483405,2	MCF-7	breast:
3	chr5:179460277..179462854-chr5:179465782..179468892,3	MCF-7	breast:
4	chr5:179466042..179468757-chr5:179469985..179473584,3	K562	blood:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1102191	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12519642	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12654148	0.88[AMR][1000 genomes]
rs12656814	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13161895	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13166286	0.91[AFR][1000 genomes]
rs13179406	0.91[AFR][1000 genomes]
rs17079966	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17079968	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs248318	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs248320	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs27012	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs27018	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34027780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34603792	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34674199	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35135297	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35592104	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35608303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35988237	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3719	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs379655	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3797763	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3797764	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs394616	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4129403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4235504	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs438050	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4389651	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs442181	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4700853	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs594202	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6873781	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6873994	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6876648	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71613436	0.91[AFR][1000 genomes]
rs71613437	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71613438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857187	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs857188	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs864482	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531997	chr5:179107599-179588082	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	339 gene(s)	inside rSNPs	diseases
2	nsv1030437	chr5:179235423-179649944	Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	189 gene(s)	inside rSNPs	diseases
3	nsv537982	chr5:179235423-179649944	Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	189 gene(s)	inside rSNPs	diseases
4	nsv948909	chr5:179249099-179772640	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
5	nsv830561	chr5:179365637-179537012	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
6	nsv1033706	chr5:179402769-179806356	Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
7	nsv1024592	chr5:179443133-179510642	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179429800-179482600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr5:179447800-179466800	Weak transcription	Hela-S3	cervix
3	chr5:179451200-179477200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:179455800-179467600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:179458800-179467000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr5:179458800-179467200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:179458800-179468200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr5:179459400-179467600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr5:179459600-179467400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr5:179460400-179467400	Strong transcription	H1 Cell Line	embryonic stem cell
11	chr5:179461800-179483600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr5:179462000-179467200	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr5:179462400-179467200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
14	chr5:179462400-179467400	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr5:179462400-179467800	Strong transcription	Left Ventricle	heart
16	chr5:179462800-179467200	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr5:179462800-179474800	Weak transcription	Fetal Heart	heart
18	chr5:179462800-179477000	Weak transcription	Colonic Mucosa	Colon
19	chr5:179463000-179467400	Strong transcription	HUES48 Cell Line	embryonic stem cell
20	chr5:179463400-179467200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr5:179463600-179467000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr5:179463600-179467200	Strong transcription	Liver	Liver
23	chr5:179463600-179467400	Weak transcription	Pancreas	Pancrea
24	chr5:179463600-179467400	Strong transcription	HSMM	muscle
25	chr5:179463600-179467600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr5:179463600-179467600	Weak transcription	Brain Angular Gyrus	brain
27	chr5:179463600-179467600	Strong transcription	Fetal Muscle Trunk	muscle
28	chr5:179463600-179467800	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr5:179463600-179467800	Weak transcription	Fetal Thymus	thymus
30	chr5:179463600-179468800	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr5:179463600-179472800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr5:179463600-179473400	Weak transcription	HUVEC	blood vessel
33	chr5:179463600-179475600	Weak transcription	Rectal Smooth Muscle	rectum
34	chr5:179463800-179467600	Strong transcription	Adipose Nuclei	Adipose
35	chr5:179463800-179477000	Weak transcription	Small Intestine	intestine
36	chr5:179463800-179479200	Weak transcription	Stomach Smooth Muscle	stomach
37	chr5:179463800-179482200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr5:179464000-179467200	Weak transcription	Fetal Brain Male	brain
39	chr5:179464200-179469000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr5:179464400-179467200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr5:179464400-179467400	Weak transcription	Brain Cingulate Gyrus	brain
42	chr5:179464400-179467800	Strong transcription	Fetal Lung	lung
43	chr5:179464400-179473200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr5:179464400-179473400	Weak transcription	Spleen	Spleen
45	chr5:179464400-179476800	Weak transcription	HepG2	liver
46	chr5:179464400-179477200	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr5:179464600-179466600	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr5:179464600-179467400	Strong transcription	Cortex derived primary cultured neurospheres	brain
49	chr5:179464600-179467800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr5:179464600-179468200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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