Variant report

Variant	rs12574556
Chromosome Location	chr11:73813164-73813165
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:73811983..73814062-chr11:73814418..73816122,2	MCF-7	breast:
2	chr11:73811374..73814264-chr11:73818911..73821742,3	K562	blood:
3	chr11:73806856..73808778-chr11:73811554..73813661,2	K562	blood:
4	chr11:73692734..73694536-chr11:73812773..73815737,2	K562	blood:
5	chr11:73811219..73813367-chr11:73816186..73818398,2	MCF-7	breast:
6	chr11:73809038..73811492-chr11:73813000..73815534,2	K562	blood:
7	chr11:73807278..73808808-chr11:73811841..73813661,2	K562	blood:

Variant related genes	Relation type
ENSG00000175567	Chromatin interaction
ENSG00000168014	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10431176	0.89[CHB][hapmap];0.88[JPT][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10501415	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10898955	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10898957	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10898958	0.85[ASN][1000 genomes]
rs10898959	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10898960	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10898961	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs10898962	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10898963	0.81[CEU][hapmap];1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs10898966	0.89[CHB][hapmap];0.83[JPT][hapmap]
rs11235972	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs11235988	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11235994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11235995	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];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11235996	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11235997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11235998	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11235999	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236000	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236002	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11236003	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11236005	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11236016	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11236018	0.84[EUR][1000 genomes]
rs11236020	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11236026	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11236027	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11236029	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11600314	1.00[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs11601582	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11602451	1.00[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs11603981	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11604125	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11604713	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11606804	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11607335	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11608147	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12222213	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12223320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12574038	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12574039	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12574047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12574650	0.82[ASN][1000 genomes]
rs12574824	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12574898	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12574960	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12575211	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1405653	0.82[ASN][1000 genomes]
rs1405654	0.82[ASN][1000 genomes]
rs1474471	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1527302	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1615607	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1685333	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs17132701	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17132715	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1800006	0.90[CHB][hapmap]
rs1800849	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs1944971	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs2091436	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2178000	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35826958	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3741133	0.89[CHB][hapmap];0.83[JPT][hapmap]
rs3814724	0.81[CEU][hapmap];1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs4019299	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4537786	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4539349	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs4565925	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55823944	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56298621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56366246	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57117016	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59109060	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59605334	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60834556	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61901208	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61901211	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61901216	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61901238	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61901245	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61901246	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61901247	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61901248	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61901252	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61902362	0.80[ASN][1000 genomes]
rs6592547	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7110734	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7115146	0.81[ASN][1000 genomes]
rs7115407	0.87[CEU][hapmap];0.94[CHB][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7119710	0.87[CEU][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7125032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7125400	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72341762	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7935920	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7941203	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7941525	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7949639	0.84[CHB][hapmap]
rs7951239	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7951290	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7951743	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7952669	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs826035	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs826044	0.93[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs826057	0.81[YRI][hapmap]
rs826058	0.81[YRI][hapmap]

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	nsv492091	chr11:73285970-73844424	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73777600-73818600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr11:73781800-73849200	Weak transcription	Stomach Mucosa	stomach
3	chr11:73782600-73823800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr11:73785600-73823600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr11:73794600-73823600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:73795000-73817400	Strong transcription	Primary neutrophils fromperipheralblood	blood
7	chr11:73795000-73817600	Strong transcription	Primary B cells from cord blood	blood
8	chr11:73795200-73814600	Strong transcription	Fetal Muscle Trunk	muscle
9	chr11:73795200-73814600	Strong transcription	Left Ventricle	heart
10	chr11:73795200-73814800	Strong transcription	Liver	Liver
11	chr11:73795200-73815200	Strong transcription	Rectal Mucosa Donor 31	rectum
12	chr11:73795200-73817600	Strong transcription	Primary T cells from cord blood	blood
13	chr11:73795200-73817600	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr11:73795200-73818200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr11:73795200-73820600	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr11:73795200-73823800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
17	chr11:73795400-73817800	Strong transcription	Primary B cells from peripheral blood	blood
18	chr11:73795800-73815000	Strong transcription	Duodenum Smooth Muscle	Duodenum
19	chr11:73795800-73817800	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr11:73796000-73817800	Strong transcription	HSMM	muscle
21	chr11:73797000-73813600	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr11:73797200-73817600	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr11:73798600-73817600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr11:73798600-73817800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr11:73800400-73817600	Strong transcription	Primary T helper cells PMA-I stimulated	--
26	chr11:73800600-73817000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr11:73801200-73817600	Strong transcription	Dnd41	blood
28	chr11:73801400-73817600	Strong transcription	Fetal Thymus	thymus
29	chr11:73801600-73823600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr11:73802000-73816200	Weak transcription	Fetal Intestine Small	intestine
31	chr11:73802000-73816600	Weak transcription	Small Intestine	intestine
32	chr11:73802000-73831800	Weak transcription	Pancreas	Pancrea
33	chr11:73802200-73880800	Weak transcription	Esophagus	oesophagus
34	chr11:73802400-73832000	Weak transcription	Fetal Heart	heart
35	chr11:73804000-73832400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr11:73804000-73880800	Weak transcription	Aorta	Aorta
37	chr11:73804200-73816400	Weak transcription	Gastric	stomach
38	chr11:73805000-73813600	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr11:73805000-73814200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr11:73805000-73814200	Weak transcription	NHLF	lung
41	chr11:73805000-73823600	Weak transcription	Colonic Mucosa	Colon
42	chr11:73805200-73813400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr11:73805200-73815600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr11:73805200-73817000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr11:73805800-73816000	Weak transcription	Right Ventricle	heart
46	chr11:73805800-73816400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr11:73806400-73816800	Weak transcription	Fetal Kidney	kidney
48	chr11:73806600-73813600	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr11:73806800-73813200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr11:73807200-73813800	Weak transcription	K562	blood

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