Variant report

Variant	rs10061480
Chromosome Location	chr5:179470930-179470931
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:179469293..179473403-chr5:179473812..179477504,5	MCF-7	breast:
2	chr5:179461642..179463908-chr5:179470350..179472207,2	K562	blood:
3	chr5:179466042..179468757-chr5:179469985..179473584,3	K562	blood:
4	chr5:179469780..179472209-chr5:179474467..179476576,2	K562	blood:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10036834	0.81[CEU][hapmap]
rs10068039	0.86[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes]
rs10068529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10068594	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10078977	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10464097	0.80[EUR][1000 genomes]
rs10479455	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10479557	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10903246	0.85[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1102190	0.90[EUR][1000 genomes]
rs12153541	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12653944	0.85[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12656219	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs173562	0.90[EUR][1000 genomes]
rs185076	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes]
rs193718	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs2386704	0.84[ASN][1000 genomes]
rs248257	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes]
rs248258	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes]
rs248316	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes]
rs248319	0.86[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes]
rs27013	1.00[CEU][hapmap];0.91[CHB][hapmap];0.89[EUR][1000 genomes]
rs27014	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs27016	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs27019	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs394588	0.82[EUR][1000 genomes]
rs4130025	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs418384	0.88[EUR][1000 genomes]
rs4340879	0.96[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4466125	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs449511	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.90[EUR][1000 genomes]
rs4700855	0.87[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs55734821	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62405020	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62405021	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6871596	0.82[EUR][1000 genomes]
rs6884290	0.91[ASN][1000 genomes]
rs6888883	0.89[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7706570	0.96[CEU][hapmap];0.83[CHB][hapmap];0.81[JPT][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs857181	0.84[CHB][hapmap];0.83[JPT][hapmap]
rs857182	0.90[EUR][1000 genomes]
rs857183	0.87[EUR][1000 genomes]
rs857189	0.90[EUR][1000 genomes]
rs9329096	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][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:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179429800-179482600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr5:179451200-179477200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:179461800-179483600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr5:179462800-179474800	Weak transcription	Fetal Heart	heart
5	chr5:179462800-179477000	Weak transcription	Colonic Mucosa	Colon
6	chr5:179463600-179472800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr5:179463600-179473400	Weak transcription	HUVEC	blood vessel
8	chr5:179463600-179475600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr5:179463800-179477000	Weak transcription	Small Intestine	intestine
10	chr5:179463800-179479200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr5:179463800-179482200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr5:179464400-179473200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr5:179464400-179473400	Weak transcription	Spleen	Spleen
14	chr5:179464400-179476800	Weak transcription	HepG2	liver
15	chr5:179464400-179477200	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr5:179464600-179471200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr5:179464600-179472400	Weak transcription	Placenta	Placenta
18	chr5:179464600-179473600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr5:179464600-179473800	Weak transcription	Right Ventricle	heart
20	chr5:179464600-179474400	Weak transcription	Primary T cells from cord blood	blood
21	chr5:179464800-179473200	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr5:179464800-179473800	Weak transcription	Primary B cells from peripheral blood	blood
23	chr5:179464800-179483000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr5:179465200-179472800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr5:179465200-179473400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr5:179465200-179474800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr5:179465200-179474800	Weak transcription	Psoas Muscle	Psoas
28	chr5:179465200-179475800	Weak transcription	HSMMtube	muscle
29	chr5:179465400-179471800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr5:179465400-179472200	Weak transcription	Fetal Stomach	stomach
31	chr5:179465400-179472400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr5:179465400-179472800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr5:179465400-179473200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr5:179465400-179473400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr5:179465400-179473400	Weak transcription	Primary B cells from cord blood	blood
36	chr5:179465400-179473600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr5:179465400-179474600	Weak transcription	Lung	lung
38	chr5:179465400-179477200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr5:179465400-179484200	Weak transcription	Aorta	Aorta
40	chr5:179465600-179474800	Weak transcription	Fetal Muscle Leg	muscle
41	chr5:179467200-179471000	Enhancers	Fetal Brain Male	brain
42	chr5:179467200-179472200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr5:179467400-179473000	Weak transcription	Brain Germinal Matrix	brain
44	chr5:179467400-179474600	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr5:179467400-179474800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr5:179467400-179483200	Weak transcription	HSMM	muscle
47	chr5:179467600-179472800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr5:179467600-179473000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr5:179467600-179473600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr5:179467600-179473600	Weak transcription	Colon Smooth Muscle	Colon

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