Variant report

Variant	rs1670564
Chromosome Location	chr11:73528717-73528718
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:73512776..73515496-chr11:73527015..73529443,2	K562	blood:
2	chr11:73528552..73530776-chr11:73572316..73575159,2	K562	blood:

Extended variants
information (count: 79 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10751229	0.81[ASN][1000 genomes]
rs10793065	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs10793066	0.85[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs10793067	0.86[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs10793068	0.82[CHB][hapmap]
rs10793069	0.82[CHB][hapmap]
rs10898931	0.93[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs10898935	0.92[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap]
rs10898946	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1095399	0.81[ASN][1000 genomes]
rs11235876	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs11235883	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11235884	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12361691	0.82[ASN][1000 genomes]
rs12420357	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12788426	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1614987	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1632159	0.96[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1670537	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];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1670540	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1670543	0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1670549	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1670551	0.83[ASN][1000 genomes]
rs1670557	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1670559	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1670562	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1670565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1670570	0.86[ASN][1000 genomes]
rs1670572	0.85[ASN][1000 genomes]
rs1723833	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1723835	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1723843	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1723848	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1792154	0.82[ASN][1000 genomes]
rs1792156	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];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1792160	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1792161	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1792165	0.86[CHB][hapmap];0.86[ASN][1000 genomes]
rs1792166	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1792170	0.83[ASN][1000 genomes]
rs1792174	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1792176	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1792180	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1792183	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1792184	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1792187	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1792193	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs1792198	0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2140893	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2444601	0.84[ASN][1000 genomes]
rs2444603	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2444606	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2462621	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2511261	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2511270	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2511271	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2511272	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2512625	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2512628	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2512629	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2515093	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2886816	0.82[ASN][1000 genomes]
rs4471449	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4514449	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4558190	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs612914	0.81[CHB][hapmap]
rs653263	0.85[CHB][hapmap]
rs6592533	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7119055	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7925514	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7934784	0.80[ASN][1000 genomes]
rs7938731	0.81[ASN][1000 genomes]
rs7940132	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs868667	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530624	chr11:73114283-73646329	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	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
3	nsv1045149	chr11:73314565-73581908	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv530641	chr11:73358393-73638725	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
5	esv3426251	chr11:73461503-73538032	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1670564	PAAF1	cis	Lymphoblastoid	GTEx
rs1670564	MRPL48	cis	Whole Blood	GTEx
rs1670564	MRPL48	Cis_1M	lymphoblastoid	RTeQTL
rs1670564	MRPL48	cis	multi-tissue	Pritchard

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73499600-73529200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr11:73499600-73549600	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr11:73499600-73583800	Weak transcription	Aorta	Aorta
4	chr11:73499800-73529400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr11:73500200-73574200	Weak transcription	Right Ventricle	heart
6	chr11:73500400-73537000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr11:73500400-73542200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr11:73500400-73571400	Weak transcription	Fetal Brain Male	brain
9	chr11:73500400-73583800	Weak transcription	Colonic Mucosa	Colon
10	chr11:73500600-73538800	Weak transcription	Colon Smooth Muscle	Colon
11	chr11:73500600-73549200	Weak transcription	Osteobl	bone
12	chr11:73500600-73553800	Weak transcription	Fetal Lung	lung
13	chr11:73500800-73558800	Weak transcription	NHEK	skin
14	chr11:73503600-73532400	Weak transcription	Stomach Mucosa	stomach
15	chr11:73503600-73541200	Weak transcription	GM12878-XiMat	blood
16	chr11:73508200-73529400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr11:73508400-73570600	Weak transcription	Psoas Muscle	Psoas
18	chr11:73508800-73533800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr11:73508800-73538200	Weak transcription	Placenta	Placenta
20	chr11:73508800-73538200	Weak transcription	Stomach Smooth Muscle	stomach
21	chr11:73508800-73541400	Weak transcription	Esophagus	oesophagus
22	chr11:73508800-73565000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr11:73508800-73573800	Weak transcription	Spleen	Spleen
24	chr11:73508800-73575400	Weak transcription	Gastric	stomach
25	chr11:73509000-73529200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr11:73509000-73530800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr11:73509000-73536800	Weak transcription	Adipose Nuclei	Adipose
28	chr11:73509000-73539400	Weak transcription	Ovary	ovary
29	chr11:73509000-73549400	Weak transcription	Brain Substantia Nigra	brain
30	chr11:73509000-73549600	Weak transcription	Brain Angular Gyrus	brain
31	chr11:73509000-73553200	Weak transcription	Lung	lung
32	chr11:73509200-73538400	Weak transcription	Brain Anterior Caudate	brain
33	chr11:73509600-73529600	Weak transcription	Brain Hippocampus Middle	brain
34	chr11:73509600-73538200	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr11:73509600-73541200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr11:73511800-73529400	Weak transcription	Fetal Heart	heart
37	chr11:73511800-73529600	Weak transcription	Left Ventricle	heart
38	chr11:73516000-73553200	Weak transcription	HepG2	liver
39	chr11:73516200-73529800	Weak transcription	NH-A	brain
40	chr11:73516200-73532200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr11:73517000-73562800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr11:73517000-73565200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr11:73517400-73538200	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr11:73517600-73533400	Weak transcription	Duodenum Mucosa	Duodenum
45	chr11:73517600-73549400	Weak transcription	Brain Cingulate Gyrus	brain
46	chr11:73517800-73537400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr11:73518000-73536400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr11:73518200-73529000	Weak transcription	Brain Germinal Matrix	brain
49	chr11:73518200-73537600	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr11:73518200-73541000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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