Variant report

Variant	rs11681425
Chromosome Location	chr2:114655601-114655602
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:114653670..114656368-chr2:114668759..114670499,2	MCF-7	breast:
2	chr2:114645610..114649008-chr2:114652847..114656238,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115091	Chromatin interaction
ENSG00000270019	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10496454	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11676281	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11678413	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11680166	0.85[EUR][1000 genomes]
rs11684493	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11695436	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12995205	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12996997	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13011246	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13020510	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs13023671	0.81[CEU][hapmap];0.91[CHD][hapmap];0.90[MEX][hapmap];0.82[TSI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1394165	0.87[JPT][hapmap]
rs17045861	0.87[JPT][hapmap]
rs17045951	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17046767	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17197639	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1949722	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2046545	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2292100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34775317	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs34803179	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35596137	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35680405	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35820702	0.85[EUR][1000 genomes]
rs35893878	0.80[ASN][1000 genomes]
rs3748997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60022746	0.84[AMR][1000 genomes]
rs6711054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6723553	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs71416564	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs71416565	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs71416571	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72952576	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72954508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7590041	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11681425	LOC440900	cis	multi-tissue	Pritchard

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:114648600-114657800	Weak transcription	Gastric	stomach
2	chr2:114648600-114667600	Weak transcription	Lung	lung
3	chr2:114649200-114661200	Weak transcription	Fetal Muscle Trunk	muscle
4	chr2:114649200-114673200	Weak transcription	Placenta	Placenta
5	chr2:114649600-114661000	Weak transcription	Fetal Muscle Leg	muscle
6	chr2:114650200-114658400	Enhancers	Adipose Nuclei	Adipose
7	chr2:114650200-114658400	Enhancers	Stomach Mucosa	stomach
8	chr2:114650200-114661000	Weak transcription	Right Ventricle	heart
9	chr2:114651200-114655800	Enhancers	Brain Hippocampus Middle	brain
10	chr2:114651600-114658000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr2:114652000-114656000	Enhancers	NHLF	lung
12	chr2:114652000-114658000	Weak transcription	Pancreas	Pancrea
13	chr2:114652000-114667600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr2:114652000-114667600	Weak transcription	Esophagus	oesophagus
15	chr2:114652200-114658000	Enhancers	Duodenum Mucosa	Duodenum
16	chr2:114652200-114700600	Weak transcription	Fetal Brain Male	brain
17	chr2:114652400-114655800	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr2:114652400-114656400	Weak transcription	Brain Germinal Matrix	brain
19	chr2:114652400-114656800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr2:114652400-114657200	Enhancers	HUVEC	blood vessel
21	chr2:114652400-114657800	Weak transcription	Aorta	Aorta
22	chr2:114652400-114657800	Weak transcription	Colonic Mucosa	Colon
23	chr2:114652400-114660400	Weak transcription	Fetal Kidney	kidney
24	chr2:114652400-114686000	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr2:114652800-114656000	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr2:114653000-114655800	Enhancers	Rectal Mucosa Donor 29	rectum
27	chr2:114653000-114658400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr2:114653000-114659600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr2:114653200-114656000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr2:114653200-114658200	Enhancers	Liver	Liver
31	chr2:114653200-114658400	Enhancers	A549	lung
32	chr2:114653200-114659200	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr2:114653200-114662400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr2:114653400-114655800	Enhancers	Fetal Heart	heart
35	chr2:114653400-114655800	Enhancers	Ovary	ovary
36	chr2:114653400-114656000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr2:114653400-114659000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr2:114653400-114662000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr2:114653400-114672600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr2:114653600-114655800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
41	chr2:114653600-114656000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
42	chr2:114653600-114658200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr2:114653600-114734800	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr2:114653800-114657400	Enhancers	Duodenum Smooth Muscle	Duodenum
45	chr2:114653800-114658000	Weak transcription	Spleen	Spleen
46	chr2:114653800-114658400	Enhancers	Osteobl	bone
47	chr2:114653800-114658600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr2:114653800-114659000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr2:114654000-114657400	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr2:114654000-114657600	Enhancers	Pancreatic Islets	Pancreatic Islet

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