Variant report

Variant	rs6934457
Chromosome Location	chr6:161582535-161582536
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:161582457..161584004-chr6:161799763..161802627,2	K562	blood:
2	chr6:161559424..161561284-chr6:161580319..161582815,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PARK2-1	chr6:161581164-161583014	NONHSAT115937

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1001422	0.85[CHD][hapmap]
rs1474914	1.00[ASN][1000 genomes]
rs16892229	0.83[GIH][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1967716	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2018762	0.81[ASN][1000 genomes]
rs2064718	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2314375	0.81[ASN][1000 genomes]
rs3798920	0.83[GIH][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3798921	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798923	1.00[CHD][hapmap];0.86[GIH][hapmap];0.93[LWK][hapmap];0.84[MEX][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3798924	0.84[ASN][1000 genomes]
rs61552758	0.81[ASN][1000 genomes]
rs6924597	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs73786014	0.81[ASN][1000 genomes]
rs7754843	1.00[CHD][hapmap];0.86[GIH][hapmap];0.84[MEX][hapmap];0.84[TSI][hapmap];1.00[ASN][1000 genomes]
rs7775897	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs910722	0.90[EUR][1000 genomes]
rs910723	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs940520	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9456637	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9458141	0.85[CHD][hapmap]

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	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1030852	chr6:161477750-161589394	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv528938	chr6:161580532-161584383	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6934457	AGPAT4	cis	cerebellum	SCAN

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161541000-161584600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:161542000-161585600	Weak transcription	Fetal Kidney	kidney
3	chr6:161544600-161589600	Weak transcription	Fetal Brain Male	brain
4	chr6:161545000-161584800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:161548400-161590800	Weak transcription	Fetal Thymus	thymus
6	chr6:161549800-161589400	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr6:161550000-161584600	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr6:161553800-161586600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:161554000-161591000	Weak transcription	Colonic Mucosa	Colon
10	chr6:161555000-161585000	Weak transcription	Right Atrium	heart
11	chr6:161555800-161586600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:161557800-161584200	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr6:161558200-161582600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:161558200-161589400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr6:161559400-161587600	Weak transcription	Fetal Intestine Large	intestine
16	chr6:161560000-161583200	Weak transcription	HMEC	breast
17	chr6:161560200-161583800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr6:161560400-161584600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:161560600-161584400	Weak transcription	NHLF	lung
20	chr6:161563400-161588200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:161567600-161585400	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr6:161569200-161584600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:161569800-161583000	Weak transcription	HSMM	muscle
24	chr6:161570200-161583200	Weak transcription	Left Ventricle	heart
25	chr6:161571200-161587600	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr6:161571600-161587400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:161572200-161582600	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr6:161572800-161586200	Weak transcription	K562	blood
29	chr6:161574600-161583400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr6:161574600-161592400	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr6:161575000-161584800	Weak transcription	Fetal Lung	lung
32	chr6:161575200-161584400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr6:161575400-161583800	Weak transcription	Brain Anterior Caudate	brain
34	chr6:161575600-161583200	Weak transcription	Right Ventricle	heart
35	chr6:161575600-161591000	Weak transcription	Gastric	stomach
36	chr6:161575600-161593400	Weak transcription	Esophagus	oesophagus
37	chr6:161575800-161583400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr6:161575800-161584200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr6:161577000-161583000	Weak transcription	Adipose Nuclei	Adipose
40	chr6:161577200-161584000	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr6:161577400-161583200	Weak transcription	Pancreas	Pancrea
42	chr6:161578600-161587200	Strong transcription	Fetal Brain Female	brain
43	chr6:161578600-161587600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:161578800-161582800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr6:161578800-161587000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr6:161578800-161587800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr6:161579000-161587600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:161579200-161584600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr6:161579200-161590200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr6:161579400-161583200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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