Variant report

Variant	rs10465524
Chromosome Location	chr1:223951254-223951255
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:223948378..223951598-chr1:223951905..223956257,3	MCF-7	breast:
2	chr1:223944827..223947653-chr1:223948239..223951646,6	K562	blood:
3	chr1:223940335..223944037-chr1:223947483..223951720,4	K562	blood:
4	chr1:223947649..223949226-chr1:223949513..223951688,2	MCF-7	breast:
5	chr1:223950388..223952525-chr1:223958515..223960018,2	K562	blood:

Variant related genes	Relation type
ENSG00000162909	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10159015	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10495215	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs10495216	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs10495217	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs10503144	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap]
rs1153957	0.96[EUR][1000 genomes]
rs1153958	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1153965	0.83[EUR][1000 genomes]
rs12059128	0.82[EUR][1000 genomes]
rs12059770	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs12060361	0.82[EUR][1000 genomes]
rs12066704	0.85[CEU][hapmap]
rs12069561	0.85[CEU][hapmap]
rs12080250	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs12088254	1.00[CEU][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs12091841	0.82[EUR][1000 genomes]
rs1222077	0.95[EUR][1000 genomes]
rs1222138	0.85[CEU][hapmap]
rs1222141	0.85[CEU][hapmap]
rs12563291	1.00[ASN][1000 genomes]
rs12563477	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12563637	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[ASN][1000 genomes]
rs12563695	0.87[EUR][1000 genomes]
rs12563713	1.00[ASN][1000 genomes]
rs12565967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs12566817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap]
rs12568612	0.85[CEU][hapmap];0.86[MEX][hapmap]
rs1629836	1.00[CEU][hapmap]
rs16841190	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16842162	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs16842229	0.82[EUR][1000 genomes]
rs16842257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap]
rs16842326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16842343	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17556570	0.85[CEU][hapmap]
rs17557288	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs17557525	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs17557623	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs17597	1.00[ASN][1000 genomes]
rs17598	0.85[CEU][hapmap]
rs28370043	1.00[ASN][1000 genomes]
rs28370073	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28370074	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28370088	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28370159	0.81[EUR][1000 genomes]
rs28370170	0.85[EUR][1000 genomes]
rs34683843	0.82[EUR][1000 genomes]
rs3738373	0.85[CEU][hapmap]
rs3738374	0.85[CEU][hapmap]
rs3885657	0.82[EUR][1000 genomes]
rs4653522	0.85[CEU][hapmap];0.86[MEX][hapmap]
rs4993742	0.82[CEU][hapmap]
rs61824003	0.85[EUR][1000 genomes]
rs61824005	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61824008	0.82[EUR][1000 genomes]
rs6604724	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6671245	1.00[CEU][hapmap]
rs6678365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs6682964	0.82[EUR][1000 genomes]
rs6683052	1.00[CEU][hapmap]
rs6685475	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs6685557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6691315	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6693372	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs6693884	0.82[CEU][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs6694960	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6696053	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6700366	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap]
rs6703104	0.85[CEU][hapmap];0.86[MEX][hapmap]
rs7331	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs751609	0.85[CEU][hapmap]
rs7530328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs7533551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs7535882	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs7548911	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7549063	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7552702	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832681	chr1:223698048-224002691	Strong transcription Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	esv3361888	chr1:223725597-224114846	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1007380	chr1:223834380-224042190	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv535310	chr1:223834380-224042190	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	esv34082	chr1:223851018-224144509	Enhancers Genic enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv1008800	chr1:223904653-224061032	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv521758	chr1:223931411-223954080	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
8	esv2757772	chr1:223935220-224363163	Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
9	esv2759000	chr1:223935220-224363163	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223931200-223954800	Strong transcription	HMEC	breast
2	chr1:223931400-223954400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:223935800-223952600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr1:223936600-223954800	Strong transcription	NHEK	skin
5	chr1:223936800-223954400	Strong transcription	HSMM	muscle
6	chr1:223937000-223954400	Strong transcription	Colonic Mucosa	Colon
7	chr1:223937000-223954400	Strong transcription	Esophagus	oesophagus
8	chr1:223937000-223954400	Strong transcription	Gastric	stomach
9	chr1:223937000-223954800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:223937000-223954800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr1:223937000-223954800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:223937000-223954800	Strong transcription	Sigmoid Colon	Sigmoid Colon
13	chr1:223937000-223954800	Strong transcription	NHDF-Ad	bronchial
14	chr1:223937000-223954800	Strong transcription	Osteobl	bone
15	chr1:223937000-223957200	Weak transcription	Primary hematopoietic stem cells	blood
16	chr1:223937000-223959000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr1:223937000-223960000	Weak transcription	Thymus	Thymus
18	chr1:223937200-223951800	Strong transcription	HSMMtube	muscle
19	chr1:223937200-223952600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr1:223937200-223953000	Strong transcription	Skeletal Muscle Male	skeletal muscle
21	chr1:223937200-223954800	Strong transcription	Primary T helper cells PMA-I stimulated	--
22	chr1:223937200-223954800	Strong transcription	Primary T helper cells fromperipheralblood	blood
23	chr1:223937200-223954800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr1:223937200-223954800	Strong transcription	Rectal Mucosa Donor 31	rectum
25	chr1:223937200-223958400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr1:223937200-223958400	Weak transcription	Fetal Heart	heart
27	chr1:223937400-223952600	Strong transcription	NH-A	brain
28	chr1:223937400-223952800	Strong transcription	Muscle Satellite Cultured Cells	--
29	chr1:223937400-223952800	Strong transcription	Skeletal Muscle Female	skeletal muscle
30	chr1:223937400-223953000	Strong transcription	Adipose Nuclei	Adipose
31	chr1:223937400-223954400	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr1:223937400-223954400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr1:223937400-223954400	Strong transcription	NHLF	lung
34	chr1:223937400-223954800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr1:223937400-223954800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr1:223937400-223954800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr1:223937400-223954800	Strong transcription	Fetal Stomach	stomach
38	chr1:223937400-223954800	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr1:223937400-223954800	Strong transcription	A549	lung
40	chr1:223937600-223954200	Strong transcription	Left Ventricle	heart
41	chr1:223937600-223954800	Strong transcription	Stomach Smooth Muscle	stomach
42	chr1:223937800-223954800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr1:223937800-223954800	Strong transcription	Cortex derived primary cultured neurospheres	brain
44	chr1:223938000-223953000	Strong transcription	Duodenum Smooth Muscle	Duodenum
45	chr1:223938000-223954200	Strong transcription	Rectal Smooth Muscle	rectum
46	chr1:223938000-223954800	Strong transcription	Duodenum Mucosa	Duodenum
47	chr1:223938000-223954800	Strong transcription	Fetal Brain Female	brain
48	chr1:223938200-223954200	Strong transcription	Brain Germinal Matrix	brain
49	chr1:223938200-223954400	Strong transcription	Ovary	ovary
50	chr1:223938200-223954400	Strong transcription	Spleen	Spleen

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