Variant report

Variant	rs6564148
Chromosome Location	chr16:74636915-74636916
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:74622797..74625662-chr16:74635267..74638190,2	K562	blood:
2	chr16:74519662..74521671-chr16:74634535..74637468,2	MCF-7	breast:
3	chr16:74635090..74638243-chr16:74699211..74701869,3	K562	blood:
4	chr16:74470889..74473778-chr16:74634712..74637177,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168411	Chromatin interaction
ENSG00000262904	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10400930	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1138860	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12921903	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12935075	0.86[ASN][1000 genomes]
rs13339156	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28377859	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28502731	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28683674	0.85[EUR][1000 genomes]
rs3923201	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs4072222	0.82[ASN][1000 genomes]
rs4072450	0.82[ASN][1000 genomes]
rs4243108	0.87[ASN][1000 genomes]
rs4271617	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4286131	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4287593	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4302071	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4316784	0.89[ASN][1000 genomes]
rs4344772	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4438331	0.91[ASN][1000 genomes]
rs4462623	0.87[ASN][1000 genomes]
rs4544266	0.80[ASN][1000 genomes]
rs4548905	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4564599	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4887776	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4887777	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4887779	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4888256	0.81[EUR][1000 genomes]
rs4888257	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4888258	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4888259	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4888260	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4888266	0.86[ASN][1000 genomes]
rs4888270	0.86[ASN][1000 genomes]
rs57488599	0.82[ASN][1000 genomes]
rs58136167	0.83[ASN][1000 genomes]
rs62053563	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6564141	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6564145	0.91[ASN][1000 genomes]
rs6564146	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6564147	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6564149	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6564152	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6564153	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6564154	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6564155	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71392603	0.81[ASN][1000 genomes]
rs7184754	0.92[ASN][1000 genomes]
rs7185026	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7185722	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7190631	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7191754	0.82[ASN][1000 genomes]
rs7193423	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7193508	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7193583	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7193959	0.92[ASN][1000 genomes]
rs7194143	0.89[ASN][1000 genomes]
rs7194687	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7195135	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7195499	0.87[ASN][1000 genomes]
rs7196627	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7203452	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7204382	0.81[EUR][1000 genomes]
rs7204804	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7205258	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7342732	0.86[ASN][1000 genomes]
rs8045848	0.82[ASN][1000 genomes]
rs8047243	0.93[ASN][1000 genomes]
rs8047523	0.81[EUR][1000 genomes]
rs8048133	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8048596	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8049056	0.82[ASN][1000 genomes]
rs8049138	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs8050615	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8050624	0.89[ASN][1000 genomes]
rs8050668	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs8052923	0.87[ASN][1000 genomes]
rs8053084	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8054836	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8055784	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8055803	0.93[ASN][1000 genomes]
rs8056718	0.90[ASN][1000 genomes]
rs8056788	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8057279	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8058034	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8058437	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8058692	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8058922	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8062404	0.90[ASN][1000 genomes]
rs8062959	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9921672	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9924716	0.85[ASN][1000 genomes]
rs9925807	0.82[ASN][1000 genomes]
rs9927073	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9928181	0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9929483	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9930003	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9931225	0.80[ASN][1000 genomes]
rs9932831	0.91[ASN][1000 genomes]
rs9938833	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916687	chr16:74241238-74896721	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
2	nsv949374	chr16:74466960-75172358	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
3	nsv1060629	chr16:74483574-74660669	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv1062517	chr16:74483574-74710623	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv833279	chr16:74490746-74663073	Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1061095	chr16:74519718-75407020	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
7	nsv906905	chr16:74527618-74679244	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6564148	RFWD3	Cis_1M	lymphoblastoid	RTeQTL
rs6564148	RFWD3	cis	Esophagus Mucosa	GTEx
rs6564148	MLKL	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:74605200-74639800	Weak transcription	Esophagus	oesophagus
2	chr16:74608400-74638200	Weak transcription	Fetal Brain Female	brain
3	chr16:74612000-74638600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr16:74615400-74637800	Weak transcription	HSMM	muscle
5	chr16:74615800-74637800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr16:74618000-74638400	Weak transcription	Brain Substantia Nigra	brain
7	chr16:74624200-74638600	Weak transcription	Placenta	Placenta
8	chr16:74624200-74639200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr16:74626000-74637800	Weak transcription	Fetal Brain Male	brain
10	chr16:74627000-74638000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr16:74628000-74638800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr16:74628600-74637400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr16:74628600-74637400	Weak transcription	Liver	Liver
14	chr16:74628600-74637600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr16:74628600-74638000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr16:74628600-74638200	Weak transcription	Colonic Mucosa	Colon
17	chr16:74628800-74637400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr16:74628800-74637400	Weak transcription	NHDF-Ad	bronchial
19	chr16:74628800-74637400	Weak transcription	Osteobl	bone
20	chr16:74628800-74637600	Weak transcription	NH-A	brain
21	chr16:74628800-74638000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr16:74629200-74637400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr16:74629200-74637800	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr16:74630800-74638600	Weak transcription	Right Ventricle	heart
25	chr16:74631000-74637800	Weak transcription	NHLF	lung
26	chr16:74631200-74637600	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr16:74631200-74639800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr16:74631400-74637400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr16:74631600-74637800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr16:74632200-74637800	Weak transcription	Fetal Stomach	stomach
31	chr16:74632200-74638600	Weak transcription	Fetal Muscle Trunk	muscle
32	chr16:74632200-74638600	Weak transcription	Fetal Muscle Leg	muscle
33	chr16:74632200-74638800	Enhancers	Primary T cells fromperipheralblood	blood
34	chr16:74632600-74639200	Weak transcription	Fetal Intestine Small	intestine
35	chr16:74632800-74637800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr16:74633400-74637800	Weak transcription	Fetal Intestine Large	intestine
37	chr16:74633800-74638000	Enhancers	Primary B cells from peripheral blood	blood
38	chr16:74634200-74637200	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr16:74634400-74638200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr16:74634600-74640200	Weak transcription	Spleen	Spleen
41	chr16:74635000-74637800	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr16:74635000-74639200	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr16:74635400-74637400	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr16:74635400-74637600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr16:74635400-74637800	Weak transcription	Fetal Thymus	thymus
46	chr16:74635400-74638600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
47	chr16:74635600-74637400	Weak transcription	Small Intestine	intestine
48	chr16:74635600-74637600	Enhancers	Primary T helper cells fromperipheralblood	blood
49	chr16:74635600-74637800	Enhancers	HepG2	liver
50	chr16:74635600-74638400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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