Variant report

Variant	rs9355872
Chromosome Location	chr6:161534333-161534334
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	chr6:161497804..161499957-chr6:161534072..161535875,2	K562	blood:

Extended variants
information (count: 73 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1001809	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963931	1.00[JPT][hapmap]
rs13194157	1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1404269	0.87[CEU][hapmap]
rs1464779	0.80[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1464780	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1488	0.86[YRI][hapmap]
rs1534020	0.82[CEU][hapmap]
rs1543261	1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1562026	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1569937	0.97[AFR][1000 genomes]
rs1982291	0.80[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2275925	1.00[JPT][hapmap]
rs2275926	1.00[JPT][hapmap]
rs2872613	0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4472323	1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4559074	1.00[ASN][1000 genomes]
rs4708898	1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709486	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4709487	0.81[YRI][hapmap]
rs4709489	1.00[ASN][1000 genomes]
rs4709490	1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709491	1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709492	0.82[EUR][1000 genomes]
rs4709493	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709495	0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709496	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs587501	1.00[ASN][1000 genomes]
rs615269	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs619393	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs628430	1.00[ASN][1000 genomes]
rs628923	1.00[ASN][1000 genomes]
rs6455701	1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[ASN][1000 genomes]
rs6455703	0.82[EUR][1000 genomes]
rs645718	1.00[ASN][1000 genomes]
rs647923	0.89[TSI][hapmap]
rs657551	1.00[ASN][1000 genomes]
rs668638	1.00[ASN][1000 genomes]
rs682110	1.00[ASN][1000 genomes]
rs683549	1.00[ASN][1000 genomes]
rs6900500	1.00[JPT][hapmap]
rs6902332	1.00[ASN][1000 genomes]
rs6902760	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905734	0.82[CEU][hapmap];0.85[YRI][hapmap]
rs6905942	1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913706	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6914092	1.00[JPT][hapmap]
rs6918476	1.00[ASN][1000 genomes]
rs6919831	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923835	1.00[JPT][hapmap]
rs6925502	1.00[JPT][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];1.00[ASN][1000 genomes]
rs6925800	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6929462	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6933810	1.00[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs705829	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs705830	1.00[ASN][1000 genomes]
rs7738762	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7753585	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7760056	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9346846	0.80[EUR][1000 genomes]
rs9355330	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9355332	0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9355867	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9355873	1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9364585	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9364586	0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9365248	1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs9458126	0.92[EUR][1000 genomes];1.00[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	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	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
3	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
4	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	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

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs9355872	RBM26	trans	brain	seeQTL
rs9355872	LOC729603	cis	cerebellum	SCAN
rs9355872	MRPS10	trans	brain	seeQTL
rs9355872	TAF7	trans	brain	seeQTL
rs9355872	B4GALT6	trans	brain	seeQTL
rs9355872	MAS1	cis	cerebellum	SCAN
rs9355872	KLF12	trans	brain	seeQTL

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161491000-161538400	Strong transcription	Primary B cells from peripheral blood	blood
2	chr6:161491600-161539800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:161494400-161542400	Strong transcription	Duodenum Mucosa	Duodenum
4	chr6:161495200-161538000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr6:161496000-161539800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:161497800-161539600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:161498000-161541800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:161500200-161540400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:161500600-161539800	Strong transcription	Rectal Mucosa Donor 29	rectum
10	chr6:161500600-161541800	Strong transcription	K562	blood
11	chr6:161500800-161538200	Strong transcription	Primary B cells from cord blood	blood
12	chr6:161510800-161537400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr6:161514000-161544600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:161514400-161539800	Strong transcription	Left Ventricle	heart
15	chr6:161514600-161541000	Strong transcription	Fetal Intestine Large	intestine
16	chr6:161517000-161539600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:161517600-161543000	Strong transcription	Skeletal Muscle Female	skeletal muscle
18	chr6:161517800-161540400	Strong transcription	HUES64 Cell Line	embryonic stem cell
19	chr6:161517800-161542200	Strong transcription	Liver	Liver
20	chr6:161518000-161534800	Strong transcription	Brain Anterior Caudate	brain
21	chr6:161518000-161537200	Strong transcription	Rectal Mucosa Donor 31	rectum
22	chr6:161518000-161538200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr6:161518000-161538600	Strong transcription	Fetal Stomach	stomach
24	chr6:161518000-161539600	Strong transcription	Fetal Muscle Leg	muscle
25	chr6:161518000-161540000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
26	chr6:161518000-161540800	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:161518000-161541400	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr6:161518200-161539800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr6:161521600-161539600	Weak transcription	Hela-S3	cervix
30	chr6:161522400-161542400	Strong transcription	Stomach Smooth Muscle	stomach
31	chr6:161522600-161535400	Strong transcription	HUVEC	blood vessel
32	chr6:161523400-161536200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr6:161523800-161540800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr6:161524000-161535400	Strong transcription	Sigmoid Colon	Sigmoid Colon
35	chr6:161524400-161534400	Strong transcription	Psoas Muscle	Psoas
36	chr6:161524400-161540000	Strong transcription	HepG2	liver
37	chr6:161525800-161541200	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr6:161526000-161541200	Strong transcription	Dnd41	blood
39	chr6:161526600-161540600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr6:161526600-161541400	Strong transcription	Placenta	Placenta
41	chr6:161526600-161542200	Strong transcription	Adipose Nuclei	Adipose
42	chr6:161526800-161534600	Strong transcription	Lung	lung
43	chr6:161526800-161539600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr6:161527000-161534600	Strong transcription	Fetal Kidney	kidney
45	chr6:161527000-161534600	Strong transcription	Spleen	Spleen
46	chr6:161527000-161540000	Strong transcription	Fetal Muscle Trunk	muscle
47	chr6:161527000-161540600	Strong transcription	HUES48 Cell Line	embryonic stem cell
48	chr6:161527000-161543000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr6:161527200-161539600	Strong transcription	Fetal Brain Female	brain
50	chr6:161527200-161542800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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