Variant report

Variant	rs13321176
Chromosome Location	chr3:150944808-150944809
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10513387	0.88[CEU][hapmap]
rs10513393	1.00[CEU][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs13322120	0.82[CEU][hapmap]
rs13322794	0.82[CEU][hapmap]
rs13327359	0.81[CEU][hapmap]
rs1388625	0.94[CEU][hapmap]
rs1549829	0.88[CEU][hapmap]
rs1554120	0.88[CEU][hapmap]
rs16863269	0.83[LWK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs17204437	1.00[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap]
rs17204459	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs17282940	0.94[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs17282947	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs17290219	0.88[CEU][hapmap]
rs17304673	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1920393	0.89[EUR][1000 genomes]
rs28386791	0.85[EUR][1000 genomes]
rs28734805	0.81[EUR][1000 genomes]
rs28810515	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28831788	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6780660	0.88[EUR][1000 genomes]
rs6792089	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs73157938	0.88[EUR][1000 genomes]
rs73157954	0.88[EUR][1000 genomes]
rs73157974	0.82[EUR][1000 genomes]
rs7633788	0.82[CEU][hapmap]
rs7633828	0.82[CEU][hapmap]
rs7634096	0.82[CEU][hapmap]
rs7637803	0.82[CEU][hapmap]
rs9289837	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs9812617	0.85[EUR][1000 genomes]
rs9814936	1.00[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.88[EUR][1000 genomes]
rs9817216	1.00[ASW][hapmap];1.00[CEU][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9818251	0.84[CEU][hapmap]
rs9819885	1.00[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]
rs9821749	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9821937	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9831242	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9834154	0.80[EUR][1000 genomes]
rs9836053	0.88[CEU][hapmap];0.88[MEX][hapmap]
rs9838990	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs9840232	0.80[EUR][1000 genomes]
rs9841430	0.84[EUR][1000 genomes]
rs9844557	0.88[CEU][hapmap]
rs9848789	1.00[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs9853676	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854017	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9854126	0.82[CEU][hapmap]
rs9855202	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs9856118	0.94[CEU][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs9859552	0.82[CEU][hapmap]
rs9859854	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9867524	0.80[EUR][1000 genomes]
rs9868643	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs9871229	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9871624	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs9872645	1.00[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs9875587	0.86[EUR][1000 genomes]
rs9876268	1.00[CEU][hapmap]
rs9876933	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs9880395	0.87[EUR][1000 genomes]
rs9881116	0.94[CEU][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13321176	MME	cis	parietal	SCAN

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
2	chr3:150928800-150946200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:150928800-150952800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:150928800-150953000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:150929000-150945200	Weak transcription	Primary B cells from peripheral blood	blood
6	chr3:150929200-150945400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:150932600-150946200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:150935400-150946200	Weak transcription	Aorta	Aorta
9	chr3:150935600-150945200	Weak transcription	Fetal Muscle Leg	muscle
10	chr3:150935600-150945400	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:150937800-150945200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:150938200-150945800	Weak transcription	Fetal Heart	heart
13	chr3:150938600-150948600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:150939600-150945200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr3:150939800-150945200	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr3:150940000-150945400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:150940000-150945400	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr3:150940000-150945400	Weak transcription	Fetal Intestine Small	intestine
19	chr3:150940400-150945800	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr3:150941400-150945200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr3:150941600-150948000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr3:150941800-150945400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:150942000-150945200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
24	chr3:150942000-150946800	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr3:150942200-150946000	Enhancers	Liver	Liver
26	chr3:150942200-150947000	Enhancers	Primary T cells from cord blood	blood
27	chr3:150942200-150948600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:150942600-150945200	Weak transcription	Brain Anterior Caudate	brain
29	chr3:150942800-150945000	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr3:150942800-150945400	Enhancers	NH-A	brain
31	chr3:150942800-150946600	Enhancers	Primary T cells fromperipheralblood	blood
32	chr3:150942800-150947000	Enhancers	Primary hematopoietic stem cells short term culture	blood
33	chr3:150943000-150945200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr3:150943000-150946800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr3:150943000-150947800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr3:150943200-150946600	Enhancers	Fetal Thymus	thymus
37	chr3:150943200-150948600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr3:150943400-150945800	Enhancers	A549	lung
39	chr3:150943600-150945200	Enhancers	Hela-S3	cervix
40	chr3:150943600-150945400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr3:150943600-150945400	Enhancers	HepG2	liver
42	chr3:150943600-150946000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
43	chr3:150943600-150946600	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr3:150943600-150946600	Enhancers	Monocytes-CD14+_RO01746	blood
45	chr3:150943800-150945400	Weak transcription	Adipose Nuclei	Adipose
46	chr3:150943800-150945400	Enhancers	Stomach Smooth Muscle	stomach
47	chr3:150943800-150945400	Enhancers	NHEK	skin
48	chr3:150943800-150945800	Enhancers	Osteobl	bone
49	chr3:150943800-150946000	Enhancers	Duodenum Mucosa	Duodenum
50	chr3:150943800-150946400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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